Below you can find a list of tools that come pre-installed when opening a Jupyter Notebook within the Researcher Workbench’s Cloud Analysis Environment. We recommend utilizing the “Ctrl/Command + F” function for quick searching.
You can also produce these lists your self within a notebook by running the below commands:
R packages (installed.packages())
Command line tools (compgen -c)
Python modules (conda list)
# packages in environment at /opt/conda:
# Name Version Build Channel _libgcc_mutex 0.1 conda_forge conda-forge _openmp_mutex 4.5 1_gnu conda-forge _r-mutex 1.0.1 anacondar_1 conda-forge absl-py 1.0.0 pyhd8ed1ab_0 conda-forge aiohttp 3.8.1 py37h5e8e339_0 conda-forge aiohttp-session 2.12.0 pypi_0 pypi aiosignal 1.2.0 pyhd8ed1ab_0 conda-forge ansiwrap 0.8.4 py_0 conda-forge anyio 3.5.0 py37h89c1867_0 conda-forge apache-beam 2.36.0 pypi_0 pypi appdirs 1.4.4 pyh9f0ad1d_0 conda-forge argcomplete 2.0.0 pypi_0 pypi argon2-cffi 21.3.0 pyhd8ed1ab_0 conda-forge argon2-cffi-bindings 21.2.0 py37h5e8e339_1 conda-forge arrow 1.2.2 pyhd8ed1ab_0 conda-forge arviz 0.12.1 pypi_0 pypi asn1crypto 1.4.0 pyh9f0ad1d_0 conda-forge astroid 2.11.6 pypi_0 pypi astunparse 1.6.3 pypi_0 pypi async-timeout 4.0.2 pyhd8ed1ab_0 conda-forge asyncinit 0.2.4 pypi_0 pypi asynctest 0.13.0 py_0 conda-forge attrs 21.4.0 pyhd8ed1ab_0 conda-forge avro 1.11.1 pypi_0 pypi azure-core 1.26.1 pypi_0 pypi azure-identity 1.12.0 pypi_0 pypi azure-storage-blob 12.14.1 pypi_0 pypi babel 2.9.1 pyh44b312d_0 conda-forge backcall 0.2.0 pyh9f0ad1d_0 conda-forge backports 1.0 py_2 conda-forge backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge bagit 1.8.1 pypi_0 pypi beatrix-jupyterlab 3.1.7 pypi_0 pypi beautifulsoup4 4.11.1 pypi_0 pypi bgenix 1.1.4 hfa204df_8 conda-forge bgzip 0.3.5 pypi_0 pypi binaryornot 0.4.4 py_1 conda-forge binutils_impl_linux-64 2.36.1 h193b22a_2 conda-forge binutils_linux-64 2.36 hf3e587d_10 conda-forge biopython 1.80 pypi_0 pypi black 22.1.0 pyhd8ed1ab_0 conda-forge bleach 5.0.1 pypi_0 pypi blinker 1.4 py_1 conda-forge bokeh 1.4.0 pypi_0 pypi boost-cpp 1.74.0 h312852a_4 conda-forge boto3 1.26.31 pypi_0 pypi botocore 1.29.31 pypi_0 pypi bottleneck 1.3.5 pypi_0 pypi brewer2mpl 1.4.1 pypi_0 pypi brotli 1.0.9 h7f98852_6 conda-forge brotli-bin 1.0.9 h7f98852_6 conda-forge brotlipy 0.7.0 py37h27cfd23_1003 bwidget 1.9.14 ha770c72_1 conda-forge bx-python 0.9.0 pypi_0 pypi bzip2 1.0.8 h7f98852_4 conda-forge c-ares 1.18.1 h7f98852_0 conda-forge ca-certificates 2022.12.7 ha878542_0 conda-forge cachecontrol 0.12.11 pypi_0 pypi cached-property 1.5.2 pypi_0 pypi cachetools 5.0.0 pyhd8ed1ab_0 conda-forge cairo 1.16.0 h6cf1ce9_1008 conda-forge certifi 2022.12.7 pypi_0 pypi cffi 1.15.0 py37h036bc23_0 conda-forge cftime 1.6.2 pypi_0 pypi chardet 4.0.0 py37h06a4308_1003 charset-normalizer 2.0.12 pyhd8ed1ab_0 conda-forge cli-builder 0.1.5 pypi_0 pypi click 8.0.4 py37h89c1867_0 conda-forge cloudpickle 2.0.0 pyhd8ed1ab_0 conda-forge cmake 3.22.2 pypi_0 pypi colorama 0.4.4 pyh9f0ad1d_0 conda-forge coloredlogs 15.0.1 pypi_0 pypi commonmark 0.9.1 pypi_0 pypi conda 22.9.0 py37h89c1867_1 conda-forge conda-package-handling 1.7.3 py37h27cfd23_1 cookiecutter 1.7.3 pyh6c4a22f_1 conda-forge crcmod 1.7 pypi_0 pypi cromshell 2.0.0 pypi_0 pypi cryptography 36.0.1 py37hf1a17b8_0 conda-forge curl 7.83.1 h7bff187_0 conda-forge cwl-upgrader 1.2.4 pypi_0 pypi cwl-utils 0.21 pypi_0 pypi cwltool 3.1.20221201130942 pypi_0 pypi cycler 0.11.0 pyhd8ed1ab_0 conda-forge cython 0.29.32 pypi_0 pypi daal 2021.6.0 pypi_0 pypi daal4py 2021.6.3 pypi_0 pypi dataclasses 0.8 pyhc8e2a94_3 conda-forge db-dtypes 1.0.5 pypi_0 pypi debugpy 1.5.1 py37hcd2ae1e_0 conda-forge decorator 4.4.2 pypi_0 pypi defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge deprecat 2.1.1 pypi_0 pypi deprecated 1.2.13 pypi_0 pypi descartes 1.1.0 pypi_0 pypi dill 0.3.6 pypi_0 pypi dlenv-base 1.0.20220226 py37hef38c82_0 file:///tmp/conda dlenv-tf-2-7-gpu 1.0.20220226 py37h9fc6d97_0 file:///tmp/conda dm-tree 0.1.6 pypi_0 pypi docker-py 5.0.3 py37h89c1867_2 conda-forge docker-pycreds 0.4.0 py_0 conda-forge docopt 0.6.2 pypi_0 pypi dsub 0.4.7 pypi_0 pypi entrypoints 0.4 pyhd8ed1ab_0 conda-forge explainable-ai-sdk 1.3.3 pypi_0 pypi explainers 0.1 pypi_0 pypi fastavro 1.4.9 pypi_0 pypi fasteners 0.17.3 pypi_0 pypi fastinterval 0.1.1 pypi_0 pypi fastprogress 1.0.3 pypi_0 pypi filelock 3.8.2 pypi_0 pypi firecloud 0.16.31 pypi_0 pypi flatbuffers 2.0 pypi_0 pypi flit-core 3.7.1 pyhd8ed1ab_0 conda-forge font-ttf-dejavu-sans-mono 2.37 hab24e00_0 conda-forge font-ttf-inconsolata 3.000 h77eed37_0 conda-forge font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge font-ttf-ubuntu 0.83 hab24e00_0 conda-forge fontconfig 2.13.96 ha180cfb_0 conda-forge fonts-conda-ecosystem 1 0 conda-forge fonts-conda-forge 1 0 conda-forge fonttools 4.29.1 py37h5e8e339_0 conda-forge freetype 2.10.4 h0708190_1 conda-forge fribidi 1.0.10 h36c2ea0_0 conda-forge frozenlist 1.3.3 pypi_0 pypi fsspec 2022.2.0 pyhd8ed1ab_0 conda-forge funcsigs 1.0.2 pypi_0 pypi future 0.18.2 pypi_0 pypi gast 0.4.0 pypi_0 pypi gatkpythonpackages 0.1 pypi_0 pypi gcc_impl_linux-64 9.5.0 h6c5bc03_17 conda-forge gcc_linux-64 9.5.0 h4258300_10 conda-forge gcsfs 2022.2.0 pyhd8ed1ab_0 conda-forge getm 0.0.4 pypi_0 pypi gettext 0.19.8.1 h73d1719_1008 conda-forge gfortran_impl_linux-64 9.5.0 hf1096a2_19 conda-forge gfortran_linux-64 9.5.0 hdb51d14_10 conda-forge ggplot 0.11.5 pypi_0 pypi giflib 5.2.1 h36c2ea0_2 conda-forge gitdb 4.0.9 pyhd8ed1ab_0 conda-forge gitpython 3.1.27 pyhd8ed1ab_0 conda-forge gnomad 0.6.4 pypi_0 pypi google-api-core 2.7.3 pypi_0 pypi google-api-core-grpcio-gcp 2.5.0 hd8ed1ab_0 conda-forge google-api-python-client 2.38.0 pyhd8ed1ab_0 conda-forge google-apitools 0.5.31 pypi_0 pypi google-auth 2.14.1 pypi_0 pypi google-auth-httplib2 0.1.0 pyhd8ed1ab_0 conda-forge google-auth-oauthlib 0.4.6 pyhd8ed1ab_0 conda-forge google-cloud-aiplatform 1.10.0 pypi_0 pypi google-cloud-appengine-logging 1.1.0 pypi_0 pypi google-cloud-audit-log 0.2.0 pypi_0 pypi google-cloud-bigquery 2.34.4 pypi_0 pypi google-cloud-bigquery-datatransfer 3.7.3 pypi_0 pypi google-cloud-bigquery-storage 2.12.0 pypi_0 pypi google-cloud-bigtable 2.5.2 pypi_0 pypi google-cloud-core 2.2.2 pyh6c4a22f_0 conda-forge google-cloud-dataproc 3.3.0 pypi_0 pypi google-cloud-datastore 1.15.3 pypi_0 pypi google-cloud-dlp 3.6.0 pypi_0 pypi google-cloud-firestore 2.3.4 pypi_0 pypi google-cloud-kms 2.11.0 pypi_0 pypi google-cloud-language 1.3.0 pypi_0 pypi google-cloud-logging 3.0.0 pypi_0 pypi google-cloud-monitoring 2.8.0 pypi_0 pypi google-cloud-pubsub 2.9.0 pypi_0 pypi google-cloud-pubsublite 1.4.0 pypi_0 pypi google-cloud-recommendations-ai 0.2.0 pypi_0 pypi google-cloud-resource-manager 1.6.3 pypi_0 pypi google-cloud-scheduler 2.6.0 pypi_0 pypi google-cloud-spanner 1.19.1 pypi_0 pypi google-cloud-speech 2.12.0 pypi_0 pypi google-cloud-storage 1.44.0 pypi_0 pypi google-cloud-tasks 2.8.0 pypi_0 pypi google-cloud-translate 3.7.0 pypi_0 pypi google-cloud-videointelligence 1.16.1 pypi_0 pypi google-cloud-vision 1.0.0 pypi_0 pypi google-crc32c 1.1.2 py37hab72019_2 conda-forge google-pasta 0.2.0 pypi_0 pypi google-resumable-media 2.4.0 pypi_0 pypi googleapis-common-protos 1.57.0 pypi_0 pypi graphite2 1.3.13 h58526e2_1001 conda-forge greenlet 1.1.2 py37hcd2ae1e_1 conda-forge grpc-google-iam-v1 0.12.4 pypi_0 pypi grpcio 1.44.0 py37hb27c1af_0 conda-forge grpcio-gcp 0.2.2 py37h89c1867_5 conda-forge grpcio-status 1.44.0 pypi_0 pypi gs-chunked-io 0.5.2 pypi_0 pypi gsl 2.7 he838d99_0 conda-forge gxx_impl_linux-64 9.5.0 h6c5bc03_17 conda-forge gxx_linux-64 9.5.0 h43f449f_10 conda-forge h5py 3.7.0 pypi_0 pypi hail 0.2.107 pypi_0 pypi harfbuzz 3.1.1 h83ec7ef_0 conda-forge hdbscan 0.8.29 pypi_0 pypi hdfs 2.6.0 pypi_0 pypi horovod 0.23.0 pypi_0 pypi html5lib 1.1 pypi_0 pypi htmlmin 0.1.12 py_1 conda-forge httplib2 0.20.4 pyhd8ed1ab_0 conda-forge humanfriendly 10.0 pypi_0 pypi humanize 1.1.0 pypi_0 pypi hurry-filesize 0.9 pypi_0 pypi icu 68.2 h9c3ff4c_0 conda-forge idna 3.3 pyhd8ed1ab_0 conda-forge igv-jupyter 1.0.0 pypi_0 pypi imagehash 4.2.1 pyhd8ed1ab_0 conda-forge imageio 2.16.0 pypi_0 pypi importlib-metadata 4.11.1 py37h89c1867_0 conda-forge importlib_resources 5.4.0 pyhd8ed1ab_0 conda-forge intel-openmp 2022.2.1 pypi_0 pypi ipykernel 6.9.1 py37h6531663_0 conda-forge ipython 7.32.0 py37h89c1867_0 conda-forge ipython-sql 0.3.9 pyhd8ed1ab_1004 conda-forge ipython_genutils 0.2.0 py_1 conda-forge ipywidgets 7.6.5 pypi_0 pypi isal 1.1.0 pypi_0 pypi isodate 0.6.1 pypi_0 pypi isort 5.10.1 pypi_0 pypi janus 1.0.0 pypi_0 pypi jbig 2.1 h7f98852_2003 conda-forge jedi 0.18.1 py37h89c1867_0 conda-forge jeepney 0.7.1 pypi_0 pypi jinja2 3.0.3 pypi_0 pypi jinja2-time 0.2.0 py_2 conda-forge jmespath 0.10.0 pypi_0 pypi joblib 1.2.0 pypi_0 pypi jpeg 9e h7f98852_0 conda-forge json5 0.9.5 pyh9f0ad1d_0 conda-forge jsonschema 4.4.0 pyhd8ed1ab_0 conda-forge jupyter 1.0.0 pypi_0 pypi jupyter-console 6.4.0 pypi_0 pypi jupyter-contrib-core 0.3.3 pypi_0 pypi jupyter-contrib-nbextensions 0.5.1 pypi_0 pypi jupyter-highlight-selected-word 0.2.0 pypi_0 pypi jupyter-http-over-ws 0.0.8 pypi_0 pypi jupyter-latex-envs 1.4.6 pypi_0 pypi jupyter-nbextensions-configurator 0.4.1 pypi_0 pypi jupyter-server-mathjax 0.2.5 pyhc268e32_0 conda-forge jupyter-server-proxy 3.2.1 pyhd8ed1ab_0 conda-forge jupyter_client 7.1.2 pyhd8ed1ab_0 conda-forge jupyter_core 4.9.2 py37h89c1867_0 conda-forge jupyter_server 1.13.5 pyhd8ed1ab_1 conda-forge jupyterlab 3.2.9 pyhd8ed1ab_0 conda-forge jupyterlab-git 0.34.2 pyhd8ed1ab_0 conda-forge jupyterlab-widgets 1.0.2 pypi_0 pypi jupyterlab_pygments 0.1.2 pyh9f0ad1d_0 conda-forge jupyterlab_server 2.10.3 pyhd8ed1ab_0 conda-forge jupytext 1.13.7 pyhd0ecf6b_0 conda-forge keras 2.7.0 pypi_0 pypi keras-preprocessing 1.1.2 pypi_0 pypi keras-tuner 1.1.0 pypi_0 pypi kernel-headers_linux-64 2.6.32 he073ed8_15 conda-forge keyring 23.5.0 pypi_0 pypi keyrings-google-artifactregistry-auth 1.0.0 pypi_0 pypi keyutils 1.6.1 h166bdaf_0 conda-forge kiwisolver 1.3.2 py37h2527ec5_1 conda-forge krb5 1.19.3 h3790be6_0 conda-forge kt-legacy 1.0.4 pypi_0 pypi lazy-object-proxy 1.7.1 pypi_0 pypi lcms2 2.12 hddcbb42_0 conda-forge ld_impl_linux-64 2.36.1 hea4e1c9_2 conda-forge lerc 3.0 h9c3ff4c_0 conda-forge libblas 3.9.0 13_linux64_openblas conda-forge libbrotlicommon 1.0.9 h7f98852_6 conda-forge libbrotlidec 1.0.9 h7f98852_6 conda-forge libbrotlienc 1.0.9 h7f98852_6 conda-forge libcblas 3.9.0 13_linux64_openblas conda-forge libclang 13.0.0 pypi_0 pypi libcrc32c 1.1.2 h9c3ff4c_0 conda-forge libcurl 7.83.1 h7bff187_0 conda-forge libdeflate 1.10 h7f98852_0 conda-forge libedit 3.1.20191231 he28a2e2_2 conda-forge libev 4.33 h516909a_1 conda-forge libffi 3.4.2 h7f98852_5 conda-forge libgcc-devel_linux-64 9.5.0 h367e8d2_17 conda-forge libgcc-ng 11.2.0 h1d223b6_12 conda-forge libgfortran-ng 11.2.0 h69a702a_12 conda-forge libgfortran5 11.2.0 h5c6108e_12 conda-forge libglib 2.70.2 h174f98d_4 conda-forge libgomp 11.2.0 h1d223b6_12 conda-forge libiconv 1.17 h166bdaf_0 conda-forge liblapack 3.9.0 13_linux64_openblas conda-forge libllvm11 11.1.0 hf817b99_3 conda-forge libnghttp2 1.47.0 h727a467_0 conda-forge libnsl 2.0.0 h7f98852_0 conda-forge libopenblas 0.3.18 pthreads_h8fe5266_0 conda-forge libpng 1.6.37 h21135ba_2 conda-forge libprotobuf 3.19.4 h780b84a_0 conda-forge libsanitizer 9.5.0 hf86b28c_17 conda-forge libsodium 1.0.18 h36c2ea0_1 conda-forge libssh2 1.10.0 ha56f1ee_2 conda-forge libstdcxx-devel_linux-64 9.5.0 h367e8d2_17 conda-forge libstdcxx-ng 11.2.0 he4da1e4_12 conda-forge libtiff 4.3.0 h542a066_3 conda-forge libuuid 2.32.1 h7f98852_1000 conda-forge libuv 1.42.0 h7f98852_0 conda-forge libwebp 1.2.2 h3452ae3_0 conda-forge libwebp-base 1.2.2 h7f98852_1 conda-forge libxcb 1.13 h7f98852_1004 conda-forge libxml2 2.9.12 h72842e0_0 conda-forge libzlib 1.2.11 h36c2ea0_1013 conda-forge llvmlite 0.38.0 py37h9d7f4d0_0 conda-forge lockfile 0.12.2 pypi_0 pypi lxml 4.9.0 pypi_0 pypi lz4-c 1.9.3 h9c3ff4c_1 conda-forge make 4.3 hd18ef5c_1 conda-forge mako 1.2.4 pypi_0 pypi markdown 3.3.6 pyhd8ed1ab_0 conda-forge markdown-it-py 1.1.0 pyhd8ed1ab_0 conda-forge markupsafe 2.0.1 py37h5e8e339_1 conda-forge matplotlib-base 3.5.1 py37h1058ff1_0 conda-forge matplotlib-inline 0.1.3 pyhd8ed1ab_0 conda-forge matplotlib-venn 0.11.7 pypi_0 pypi mccabe 0.7.0 pypi_0 pypi mdit-py-plugins 0.3.0 pyhd8ed1ab_0 conda-forge missingno 0.4.2 py_1 conda-forge mistune 0.8.4 py37h5e8e339_1005 conda-forge mizani 0.7.3 pypi_0 pypi mkl 2022.2.1 pypi_0 pypi mock 4.0.3 pypi_0 pypi msal 1.20.0 pypi_0 pypi msal-extensions 1.0.0 pypi_0 pypi msgpack 1.0.4 pypi_0 pypi msrest 0.7.1 pypi_0 pypi multidict 6.0.2 py37h5e8e339_0 conda-forge multimethod 1.4 py_0 conda-forge multiprocess 0.70.14 pypi_0 pypi munkres 1.1.4 pyh9f0ad1d_0 conda-forge mypy_extensions 0.4.3 py37h89c1867_4 conda-forge nb_conda 2.2.1 py37h89c1867_4 conda-forge nb_conda_kernels 2.3.1 py37h89c1867_1 conda-forge nbclassic 0.3.5 pyhd8ed1ab_0 conda-forge nbclient 0.5.11 pyhd8ed1ab_0 conda-forge nbconvert 6.5.0 pypi_0 pypi nbdime 3.1.1 pyhd8ed1ab_0 conda-forge nbformat 5.1.3 pyhd8ed1ab_0 conda-forge nbstripout 0.6.1 pypi_0 pypi ncurses 6.3 h9c3ff4c_0 conda-forge nest-asyncio 1.5.4 pyhd8ed1ab_0 conda-forge netcdf4 1.6.2 pypi_0 pypi networkx 2.6.3 pyhd8ed1ab_1 conda-forge nodejs 12.22.6 h8b53aa1_0 conda-forge nose 1.3.7 pypi_0 pypi notebook 6.4.8 pyha770c72_0 conda-forge notebook-executor 0.2 pypi_0 pypi numba 0.55.1 py37h2d894fd_0 conda-forge numpy 1.21.6 pypi_0 pypi oauth2client 4.1.3 pypi_0 pypi oauthlib 3.2.0 pyhd8ed1ab_0 conda-forge openjpeg 2.4.0 hb52868f_1 conda-forge openssl 1.1.1o h166bdaf_0 conda-forge opt-einsum 3.3.0 pypi_0 pypi orjson 3.6.7 pypi_0 pypi overrides 6.1.0 pypi_0 pypi packaging 21.3 pyhd8ed1ab_0 conda-forge palettable 3.3.0 pypi_0 pypi pandas 1.3.5 py37he8f5f7f_0 conda-forge pandas-gbq 0.17.9 pypi_0 pypi pandas-profiling 3.0.0 pypi_0 pypi pandoc 2.17.1.1 ha770c72_0 conda-forge pandocfilters 1.5.0 pyhd8ed1ab_0 conda-forge pango 1.48.10 h54213e6_2 conda-forge papermill 2.3.4 pyhd8ed1ab_0 conda-forge parameterized 0.8.1 pypi_0 pypi parsimonious 0.8.1 pypi_0 pypi parso 0.8.3 pyhd8ed1ab_0 conda-forge pathspec 0.9.0 pyhd8ed1ab_0 conda-forge patsy 0.5.3 pypi_0 pypi pcre 8.45 h9c3ff4c_0 conda-forge pcre2 10.37 h032f7d1_0 conda-forge pdoc3 0.10.0 pypi_0 pypi pexpect 4.8.0 pyh9f0ad1d_2 conda-forge phik 0.12.0 py37h18a2d16_1 conda-forge pickleshare 0.7.5 py_1003 conda-forge pillow 9.0.1 py37h44f0d7a_2 conda-forge pip 22.3.1 pypi_0 pypi pixman 0.40.0 h36c2ea0_0 conda-forge platformdirs 2.5.1 pyhd8ed1ab_0 conda-forge plotly 5.10.0 pypi_0 pypi plotnine 0.8.0 pypi_0 pypi pluggy 1.0.0 pypi_0 pypi portalocker 2.6.0 pypi_0 pypi poyo 0.5.0 py_0 conda-forge prettytable 3.1.1 pyhd8ed1ab_0 conda-forge prometheus_client 0.13.1 pyhd8ed1ab_0 conda-forge promise 2.3 pypi_0 pypi prompt-toolkit 3.0.27 pyha770c72_0 conda-forge proto-plus 1.22.1 pypi_0 pypi protobuf 3.20.2 pypi_0 pypi prov 1.5.1 pypi_0 pypi psutil 5.9.0 pypi_0 pypi pthread-stubs 0.4 h36c2ea0_1001 conda-forge ptyprocess 0.7.0 pyhd3deb0d_0 conda-forge pulp 2.7.0 pypi_0 pypi py4j 0.10.9.7 pypi_0 pypi pyarrow 7.0.0 pypi_0 pypi pyasn1 0.4.8 py_0 conda-forge pyasn1-modules 0.2.7 py_0 conda-forge pybind11-abi 4 hd8ed1ab_3 conda-forge pycosat 0.6.3 py37h27cfd23_0 pycparser 2.21 pyhd8ed1ab_0 conda-forge pydantic 1.9.0 py37h5e8e339_0 conda-forge pydata-google-auth 1.4.0 pypi_0 pypi pydot 1.4.2 pypi_0 pypi pyfaidx 0.7.1 pypi_0 pypi pyfasta 0.5.2 pypi_0 pypi pygments 2.12.0 pypi_0 pypi pyjwt 2.3.0 pyhd8ed1ab_1 conda-forge pylint 1.7.2 pypi_0 pypi pymc3 3.11.5 pypi_0 pypi pymongo 3.12.3 pypi_0 pypi pyopenssl 22.0.0 pyhd8ed1ab_0 conda-forge pypandoc 1.10 pypi_0 pypi pyparsing 2.4.7 pypi_0 pypi pyrsistent 0.18.1 py37h5e8e339_0 conda-forge pysam 0.20.0 pypi_0 pypi pysocks 1.7.1 py37_1 python 3.7.12 hb7a2778_100_cpython conda-forge python-datauri 1.1.0 pypi_0 pypi python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge python-json-logger 2.0.4 pypi_0 pypi python-kubernetes 22.6.0 pyhd8ed1ab_0 conda-forge python-lzo 1.14 pypi_0 pypi python-slugify 6.1.0 pyhd8ed1ab_0 conda-forge python_abi 3.7 2_cp37m conda-forge pytz 2022.1 pypi_0 pypi pyu2f 0.1.5 pyhd8ed1ab_0 conda-forge pyvcf3 1.0.3 pypi_0 pypi pywavelets 1.2.0 py37hb1e94ed_1 conda-forge pyyaml 6.0 py37h5e8e339_3 conda-forge pyzmq 22.3.0 py37h336d617_1 conda-forge qtconsole 5.2.2 pypi_0 pypi r-base 4.1.1 hb93adac_1 conda-forge r-data.table 1.14.2 r41hcfec24a_0 conda-forge r-docopt 0.7.1 r41hc72bb7e_2 conda-forge r-getopt 1.20.3 r41ha770c72_3 conda-forge r-lattice 0.20_45 r41hcfec24a_0 conda-forge r-matrix 1.4_1 r41h0154571_0 conda-forge r-optparse 1.7.3 r41hc72bb7e_1 conda-forge r-qlcmatrix 0.9.7 r41hc72bb7e_1003 conda-forge r-rcpp 1.0.8.3 r41h7525677_0 conda-forge r-rcppparallel 5.1.5 r41h03ef668_0 conda-forge r-rhpcblasctl 0.21_247.1 r41hcfec24a_0 conda-forge r-saige 0.45.0 r41hce4ab8e_3 bioconda r-slam 0.1_50 r41hb699f27_1 conda-forge r-sparsesvd 0.2 r41hcfec24a_1 conda-forge r-spatest 3.1.2 r41hc72bb7e_1 conda-forge rdflib 6.2.0 pypi_0 pypi readline 8.1 h27cfd23_0 requests 2.27.1 pyhd8ed1ab_0 conda-forge requests-oauthlib 1.3.1 pyhd8ed1ab_0 conda-forge retrying 1.3.3 pypi_0 pypi rich 12.6.0 pypi_0 pypi rsa 4.8 pyhd8ed1ab_0 conda-forge ruamel-yaml 0.17.21 pypi_0 pypi ruamel-yaml-clib 0.2.7 pypi_0 pypi ruamel_yaml 0.15.100 py37h27cfd23_0 s3transfer 0.6.0 pypi_0 pypi savvy 2.0.1 hfb1f815_4 bioconda schema-salad 8.3.20221115203138 pypi_0 pypi scikit-image 0.19.2 pypi_0 pypi scikit-learn 1.0.2 py37hf9e9bfc_0 conda-forge scikit-learn-intelex 2021.6.3 pypi_0 pypi scipy 1.7.3 py37hf2a6cf1_0 conda-forge seaborn 0.12.1 pypi_0 pypi secretstorage 3.3.1 pypi_0 pypi sed 4.8 he412f7d_0 conda-forge semver 2.13.0 pypi_0 pypi send2trash 1.8.0 pyhd8ed1ab_0 conda-forge setuptools 59.8.0 py37h89c1867_0 conda-forge shellescape 3.8.1 pypi_0 pypi shrinkwrap 1.2.0 h8332532_0 conda-forge simpervisor 0.4 pyhd8ed1ab_0 conda-forge six 1.16.0 pyhd3eb1b0_0 slackclient 2.5.0 pypi_0 pypi smmap 3.0.5 pyh44b312d_0 conda-forge sniffio 1.2.0 py37h89c1867_2 conda-forge sortedcontainers 2.4.0 pypi_0 pypi soupsieve 2.3.2.post1 pypi_0 pypi sqlalchemy 1.4.31 py37h5e8e339_0 conda-forge sqlite 3.37.0 h9cd32fc_0 conda-forge sqlparse 0.4.2 pyhd8ed1ab_0 conda-forge statsmodels 0.13.5 pypi_0 pypi sysroot_linux-64 2.12 he073ed8_15 conda-forge tabulate 0.8.9 pypi_0 pypi tangled-up-in-unicode 0.1.0 pyhd8ed1ab_0 conda-forge tbb 2021.7.1 pypi_0 pypi tenacity 7.0.0 pypi_0 pypi tensorboard 2.8.0 pypi_0 pypi tensorboard-data-server 0.6.1 pypi_0 pypi tensorboard-plugin-wit 1.8.1 pypi_0 pypi tensorflow 2.7.0 pypi_0 pypi tensorflow-cloud 0.1.16 pypi_0 pypi tensorflow-datasets 4.4.0 pypi_0 pypi tensorflow-estimator 2.7.0 pypi_0 pypi tensorflow-hub 0.12.0 pypi_0 pypi tensorflow-io 0.23.1 pypi_0 pypi tensorflow-io-gcs-filesystem 0.24.0 pypi_0 pypi tensorflow-metadata 1.6.0 pypi_0 pypi tensorflow-probability 0.14.1 pypi_0 pypi tensorflow-serving-api 2.7.0 pypi_0 pypi tensorflow-transform 1.6.0 pypi_0 pypi termcolor 1.1.0 pypi_0 pypi terminado 0.13.1 py37h89c1867_0 conda-forge terra-notebook-utils 0.9.3 pypi_0 pypi terra-widgets 0.0.1 pypi_0 pypi testpath 0.6.0 pyhd8ed1ab_0 conda-forge text-unidecode 1.3 py_0 conda-forge textwrap3 0.9.2 py_0 conda-forge tfx-bsl 1.6.0 pypi_0 pypi theano 1.0.5 pypi_0 pypi theano-pymc 1.1.2 pypi_0 pypi threadpoolctl 3.1.0 pyh8a188c0_0 conda-forge tifffile 2021.11.2 pypi_0 pypi tinycss2 1.1.1 pypi_0 pypi tk 8.6.12 h27826a3_0 conda-forge tktable 2.10 hb7b940f_3 conda-forge toml 0.10.2 pyhd8ed1ab_0 conda-forge tomli 2.0.1 pyhd8ed1ab_0 conda-forge toolz 0.12.0 pyhd8ed1ab_0 conda-forge tornado 6.1 py37h5e8e339_2 conda-forge tqdm 4.64.1 pypi_0 pypi traitlets 5.1.1 pyhd8ed1ab_0 conda-forge typed-ast 1.5.2 py37h5e8e339_0 conda-forge typing-extensions 4.1.1 hd8ed1ab_0 conda-forge typing-inspect 0.7.1 pypi_0 pypi typing-utils 0.1.0 pypi_0 pypi typing_extensions 4.1.1 pyha770c72_0 conda-forge ujson 5.1.0 py37hcd2ae1e_0 conda-forge unicodedata2 14.0.0 py37h5e8e339_0 conda-forge unidecode 1.3.3 pyhd8ed1ab_0 conda-forge uritemplate 4.1.1 pyhd8ed1ab_0 conda-forge urllib3 1.26.8 pyhd8ed1ab_1 conda-forge uvloop 0.17.0 pypi_0 pypi visions 0.7.1 pypi_0 pypi wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge webencodings 0.5.1 py_1 conda-forge websocket-client 1.3.1 pyhd8ed1ab_0 conda-forge werkzeug 2.2.2 pypi_0 pypi whatshap 1.7 pypi_0 pypi wheel 0.38.4 pypi_0 pypi widgetsnbextension 3.5.2 pypi_0 pypi witwidget 1.8.0 pypi_0 pypi wrapt 1.13.3 py37h5e8e339_1 conda-forge xai-tabular-widget 0.1.0 pypi_0 pypi xarray 0.20.2 pypi_0 pypi xarray-einstats 0.2.2 pypi_0 pypi xgboost 1.6.2 pypi_0 pypi xopen 1.7.0 pypi_0 pypi xorg-kbproto 1.0.7 h7f98852_1002 conda-forge xorg-libice 1.0.10 h7f98852_0 conda-forge xorg-libsm 1.2.3 hd9c2040_1000 conda-forge xorg-libx11 1.7.2 h7f98852_0 conda-forge xorg-libxau 1.0.9 h7f98852_0 conda-forge xorg-libxdmcp 1.1.3 h7f98852_0 conda-forge xorg-libxext 1.3.4 h7f98852_1 conda-forge xorg-libxrender 0.9.10 h7f98852_1003 conda-forge xorg-libxt 1.2.1 h7f98852_2 conda-forge xorg-renderproto 0.11.1 h7f98852_1002 conda-forge xorg-xextproto 7.3.0 h7f98852_1002 conda-forge xorg-xproto 7.0.31 h7f98852_1007 conda-forge xz 5.2.5 h7b6447c_0 yaml 0.2.5 h7b6447c_0 yarl 1.7.2 py37h5e8e339_1 conda-forge zeromq 4.3.4 h9c3ff4c_1 conda-forge zipp 3.7.0 pyhd8ed1ab_1 conda-forge zlib 1.2.11 h36c2ea0_1013 conda-forge zstd 1.5.2 ha95c52a_0 conda-forge
Note: you may need to restart the kernel to use updated packages.
R packages (installed.packages ())
Package Version
abind 1.4-5
annotate 1.76.0
AnnotationDbi 1.60.0
AnnotationFilter 1.22.0
AnnotationHub 3.6.0
AnVIL 1.10.1
askpass 1.1
assertthat 0.2.1
backports 1.4.1
base64enc 0.1-3
beachmat 2.14.0
BH 1.78.0-0
bigrquery 1.4.1
Biobase 2.58.0
BiocFileCache 2.6.0
BiocGenerics 0.44.0
BiocIO 1.8.0
BiocManager 1.30.19
BiocNeighbors 1.16.0
BiocParallel 1.32.4
BiocSingular 1.14.0
BiocVersion 3.16.0
biomaRt 2.54.0
Biostrings 2.66.0
bit 4.0.5
bit64 4.0.5
bitops 1.0-7
blob 1.2.3
bluster 1.8.0
boot 1.3-28.1
brew 1.0-8
brio 1.1.3
broom 1.0.1
bslib 0.4.1
cachem 1.0.6
callr 3.7.3
caTools 1.18.2
cellranger 1.1.0
class 7.3-20
cli 3.4.1
clipr 0.8.0
cluster 2.1.4
codetools 0.2-18
colorspace 2.0-3
commonmark 1.8.1
cowplot 1.1.1
cpp11 0.4.3
crayon 1.5.2
credentials 1.3.2
crosstalk 1.2.0
curl 4.3.3
data.table 1.14.6
DBI 1.1.3
dbplyr 2.2.1
DelayedArray 0.24.0
DelayedMatrixStats 1.20.0
deldir 1.0-6
desc 1.4.2
DESeq2 1.38.1
devtools 2.4.5
diffobj 0.3.5
digest 0.6.30
DNAcopy 1.72.2
downlit 0.4.2
dplyr 1.0.10
dqrng 0.3.0
DT 0.26
dtplyr 1.2.2
edgeR 3.40.0
ellipsis 0.3.2
ensembldb 2.22.0
evaluate 0.18
ExperimentHub 2.6.0
fansi 1.0.3
farver 2.1.1
fastmap 1.1.0
filelock 1.0.2
fitdistrplus 1.1-8
FNN 1.1.3.1
fontawesome 0.4.0
forcats 0.5.2
foreign 0.8-84
formatR 1.12
formula.tools 1.7.1
fs 1.5.2
futile.logger 1.4.3
futile.options 1.0.1
future 1.29.0
future.apply 1.10.0
gargle 1.2.1
gdsfmt 1.34.0
geneplotter 1.76.0
generics 0.1.3
GENESIS 2.28.0
GenomeInfoDb 1.34.4
GenomeInfoDbData 1.2.9
GenomicAlignments 1.34.0
GenomicFeatures 1.50.2
GenomicRanges 1.50.1
gert 1.9.2
ggplot2 3.4.0
ggrepel 0.9.2
ggridges 0.5.4
gh 1.3.1
gitcreds 0.1.2
globals 0.16.2
glue 1.6.2
goftest 1.2-3
googleAuthR 2.0.0
googleCloudStorageR 0.7.0
googledrive 2.0.0
googlesheets4 1.0.1
gplots 3.1.3
gridExtra 2.3
gtable 0.3.1
gtools 3.9.4
GWASExactHW 1.01
GWASTools 1.44.0
haven 2.5.1
here 1.0.1
highr 0.9
hms 1.1.2
htmltools 0.5.4
htmlwidgets 1.5.4
httpuv 1.6.6
httr 1.4.4
hwriter 1.3.2.1
ica 1.0-3
ids 1.0.1
igraph 1.3.5
ini 0.3.1
interactiveDisplayBase 1.36.0
interp 1.1-3
IRanges 2.32.0
IRdisplay 1.1
IRkernel 1.3.1
irlba 2.3.5.1
isoband 0.2.6
jpeg 0.1-10
jquerylib 0.1.4
jsonlite 1.8.4
KEGGREST 1.38.0
KernSmooth 2.23-20
knitr 1.41
labeling 0.4.2
lambda.r 1.2.4
later 1.3.0
lattice 0.20-45
latticeExtra 0.6-30
lazyeval 0.2.2
leiden 0.4.3
lifecycle 1.0.3
limma 3.54.0
listenv 0.8.0
lmtest 0.9-40
locfit 1.5-9.6
logistf 1.24.1
lubridate 1.9.0
magrittr 2.0.3
MASS 7.3-58.1
Matrix 1.5-3
MatrixGenerics 1.10.0
MatrixModels 0.5-1
matrixStats 0.63.0
memoise 2.0.1
metapod 1.6.0
mgcv 1.8-41
mice 3.15.0
mime 0.12
miniUI 0.1.1.1
modelr 0.1.10
munsell 0.5.0
nlme 3.1-160
nnet 7.3-18
openssl 2.0.5
operator.tools 1.6.3
parallelly 1.32.1
patchwork 1.1.2
pbapply 1.6-0
pbdZMQ 0.3-8
pillar 1.8.1
pkgbuild 1.4.0
pkgconfig 2.0.3
pkgdown 2.0.6
pkgload 1.3.2
plogr 0.2.0
plotly 4.10.1
plyr 1.8.8
png 0.1-8
polyclip 1.10-4
praise 1.0.0
prettyunits 1.1.1
processx 3.8.0
profvis 0.3.7
progress 1.2.2
progressr 0.11.0
promises 1.2.0.1
ProtGenerics 1.30.0
ps 1.7.2
purrr 0.3.5
quantreg 5.94
quantsmooth 1.64.0
R6 2.5.1
ragg 1.2.4
RANN 2.6.1
rapiclient 0.1.3
rapidjsonr 1.2.0
rappdirs 0.3.3
rcmdcheck 1.4.0
RColorBrewer 1.1-3
Rcpp 1.0.9
RcppAnnoy 0.0.20
RcppArmadillo 0.11.4.2.1
RcppEigen 0.3.3.9.3
RcppHNSW 0.4.1
RcppProgress 0.4.2
RcppTOML 0.1.7
RCurl 1.98-1.9
readr 2.1.3
readxl 1.4.1
rematch 1.0.1
rematch2 2.1.2
remotes 2.4.2
repr 1.1.4
reprex 2.0.2
reshape2 1.4.4
restfulr 0.0.15
reticulate 1.26
Rhtslib 2.0.0
rjson 0.2.21
rlang 1.0.6
rmarkdown 2.18
ROCR 1.0-11
Ronaldo 0.1.0
roxygen2 7.2.2
rpart 4.1.19
rprojroot 2.0.3
Rsamtools 2.14.0
RSQLite 2.2.19
rstudioapi 0.14
rsvd 1.0.5
rtracklayer 1.58.0
Rtsne 0.16
rversions 2.1.2
rvest 1.0.3
S4Vectors 0.36.1
sandwich 3.0-2
sass 0.4.4
ScaledMatrix 1.6.0
scales 1.2.1
scattermore 0.8
scran 1.26.0
scRNAseq 2.12.0
sctransform 0.3.5
scuttle 1.8.2
selectr 0.4-2
SeqArray 1.38.0
SeqVarTools 1.36.0
sessioninfo 1.2.2
Seurat 4.3.0
SeuratObject 4.1.3
shiny 1.7.3
ShortRead 1.56.1
SingleCellExperiment 1.20.0
sitmo 2.0.2
snow 0.4-4
SNPRelate 1.32.1
sourcetools 0.1.7
sp 1.5-1
SparseM 1.81
sparseMatrixStats 1.10.0
spatial 7.3-15
spatstat.data 3.0-0
spatstat.explore 3.0-5
spatstat.geom 3.0-3
spatstat.random 3.0-1
spatstat.sparse 3.0-0
spatstat.utils 3.0-1
statmod 1.4.37
stringi 1.7.8
stringr 1.5.0
SummarizedExperiment 1.28.0
survival 3.4-0
sys 3.4.1
systemfonts 1.0.4
tensor 1.5
testthat 3.1.5
textshaping 0.3.6
tibble 3.1.8
tidyr 1.2.1
tidyselect 1.2.0
tidyverse 1.3.2
timechange 0.1.1
tinytex 0.42
tzdb 0.3.0
urlchecker 1.0.1
usethis 2.1.6
utf8 1.2.2
uuid 1.1-0
uwot 0.1.14
vctrs 0.5.1
viridisLite 0.4.1
vroom 1.6.0
waldo 0.4.0
whisker 0.4.1
withr 2.5.0
xfun 0.35
XML 3.99-0.13
xml2 1.3.3
xopen 1.0.0
xtable 1.8-4
XVector 0.38.0
yaml 2.3.6
zip 2.2.2
zlibbioc 1.44.0
zoo 1.8-11
base 4.2.2
compiler 4.2.2
datasets 4.2.2
graphics 4.2.2
grDevices 4.2.2
grid 4.2.2
methods 4.2.2
parallel 4.2.2
splines 4.2.2
stats 4.2.2
stats4 4.2.2
tcltk 4.2.2
tools 4.2.2
utils 4.2.2
Command line tools (compgen-c)
xz
schemagen
soap2sam.pl
native2ascii
lzmainfo
xvinfo
plot-bamstats
xkill
idlj
md5fa
novo2sam.pl
xfontsel
ace2sam
pdb3.7
xdpyinfo
xzcat
xlsatoms
policytool
xlsclients
xwininfo
openssl
editres
xzegrep
xjc
appres
export2sam.pl
xzless
xdriinfo
x86_64-linux-gnu-python3.7-config
python3.7-config
xzgrep
extcheck
javah
pydoc3.7
maq2sam-long
x86_64-linux-gnu-python3.7m-config
orbd
wsgen
jsadebugd
wgsim_eval.pl
viewres
wsimport
bowtie2sam.pl
servertool
samtools
sam2vcf.pl
zoom2sam.pl
hsdb
python3.7
tnameserv
samtools.pl
xfd
listres
xzfgrep
xzcmp
montage-im6.q16
gtk-builder-convert
bdftruncate
fftwq-wisdom
fftwl-wisdom
gsl-config
ucs2any
gcov-tool-9
mpic++.openmpi
dh_autotools-dev_restoreconfig
glib-genmarshal
conjure-im6.q16
mysql_config
x86_64-linux-gnu-gcc-nm-9
odbcinst
ompi_info
gdbus-codegen
libwmf-config
x86_64-linux-gnu-gcov-tool-9
ompi-clean
convert-im6.q16
mpif90.openmpi
x86_64-linux-gnu-gcov-9
pl2pm
glib-compile-resources
pod2usage
nc-config
x86_64-linux-gnu-gfortran-9
xml2-config
mpiCC.openmpi
mpirun
autoheader
mogrify-im6.q16
gencfu
bgzip
gobject-query
compare
fftw-wisdom
gcov-dump-9
enc2xs
gcov-9
mpiexec
gfortran-9
opalcc
libnetcfg
bdftopcf
perlivp
apt-ftparchive
gcc-ar-9
m4
pod2html
xmllint
makeconv
orted
dh_perl_dbi
piconv
pod2man
jags
convert
gtester
libgcrypt-config
glib-mkenums
update-perl-sax-parsers
gfortran
Rscript
mpifort.openmpi
splain
gpg-error-config
R
config_data
mpif77
orterun
mpif77.openmpi
h2ph
geos-config
dbiprof
uconv
aclocal-1.16
automake
zipdetails
h2xs
stream-im6
lwp-dump
mpicalc
GET
shasum
json_pp
ggobi
mpif90
display
orte-server
gcc-nm-9
dap-config
podselect
montage-im6
dh_perl_openssl
x86_64-linux-gnu-gcov-dump-9
krb5-config
htsfile
pcre2-config
curl-config
autom4te
compare-im6.q16
instmodsh
display-im6.q16
sqlite
apt-sortpkgs
gpgrt-config
xsubpp
autoconf
x86_64-linux-gnu-gfortran
import
apt-extracttemplates
HEAD
gcc-9
pango-list
mpic++
stream
gdk-pixbuf-thumbnailer
import-im6
biber
animate-im6
x86_64-linux-gnu-g++-9
translit
xauth
composite-im6
ogdi-config
lwp-mirror
tclsh8.5
conjure-im6
pcre-config
lwp-download
gendict
x86_64-linux-gnu-gcc-ar-9
pango-view
genrb
autoreconf
stream-im6.q16
l4p-tmpl
mpicc.openmpi
montage
pg_config
mpifort
identify-im6
ompi-server
cpan
automake-1.16
mpicxx
findrule
gencnval
convert-im6
mogrify-im6
mpiCC
krb5-config.mit
gdk-pixbuf-pixdata
cpp-9
fftw-wisdom-to-conf
fonttosfnt
encguess
lwp-request
orte-clean
conjure
xslt-config
mogrify
ptar
compare-im6
xmlcatalog
corelist
dh_autotools-dev_updateconfig
gcc-ranlib-9
pkgdata
POST
compile_et
f95
x86_64-linux-gnu-gcc-ranlib-9
x86_64-linux-gnu-cpp-9
pod2text
perl5.30-x86_64-linux-gnu
ifnames
autoscan
gtester-report
icuinfo
identify
ptargrep
x86_64-linux-gnu-gcc-9
display-im6
g++-9
dumpsexp
identify-im6.q16
prove
mpirun.openmpi
derb
composite
mpicc
composite-im6.q16
opalc++
animate-im6.q16
mpicxx.openmpi
autoupdate
ptardiff
dbilogstrip
gdal-config
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