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software-2020.yml
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software:
open-source-libraries-used:
- name: github
count: 11
url: https://github.com
- name: git
count: 2
url: https://git-scm.com/doc
- name: python
count: 3
url: https://github.com/python
- name: r
count: 4
url: https://www.r-project.org/
- name: julialang/julia
count: 1
url: https://github.com/JuliaLang/julia
- name: qgis/qgis
count: 1
url: https://github.com/qgis/QGIS
- name: osgeo/proj
count: 1
url: https://github.com/OSGeo/PROJ
- name: pandas-dev/pandas
count: 5
url: https://github.com/pandas-dev/pandas
- name: osgeo/gdal
count: 2
url: https://github.com/OSGeo/gdal
- name: libgeos/geos
count: 1
url: https://github.com/libgeos/geos
- name: python/cpython
count: 1
url: https://github.com/python/cpython
- name: numpy/numpy
count: 7
url: https://github.com/numpy/numpy
- name: scikit-image/scikit-image
count: 1
url: https://github.com/scikit-image/scikit-image
- name: scipy/scipy
count: 5
url: https://github.com/scipy/scipy
- name: toblerity/shapely
count: 1
url: https://github.com/Toblerity/Shapely
- name: electron/electron
count: 1
url: https://github.com/electron/electron
- name: nodejs/nodejs
count: 1
url: https://github.com/nodejs/node
- name: facebook/react
count: 1
url: https://github.com/facebook/react
- name: rdkit
count: 1
url: https://www.rdkit.org
- name: hpcng/singularity
count: 1
url: https://github.com/hpcng/singularity
- name: jupyterlab
count: 2
url: https://github.com/jupyterlab
- name: pyenv/pyenv
count: 1
url: https://github.com/pyenv/pyenv
- name: nipreps/fmriprep
count: 1
url: https://github.com/nipreps/fmriprep
- name: nipy/nipype
count: 1
url: https://github.com/nipy/nipype
- name: scikit-learn/scikit-learn
count: 2
url: https://github.com/scikit-learn/scikit-learn
- name: sqlite/sqlite
count: 1
url: https://github.com/sqlite/sqlite
- name: sqalchemy/sqlalchemy
count: 1
url: https://github.com/sqlalchemy/sqlalchemy
- name: dask/dask
count: 1
url: https://github.com/dask/dask
- name: datajoint
count: 1
url: https://github.com/datajoint
- name: napari/napari
count: 1
url: https://github.com/napari/napari
- name: mouseland/cellpose
count: 1
url: https://github.com/MouseLand/cellpose
- name: google/neuroglancer
count: 1
url: https://github.com/google/neuroglancer
- name: cupy/cupy
count: 1
url: https://github.com/cupy/cupy
- name: mritools/cupyimg
count: 1
url: https://github.com/mritools/cupyimg
- name: pydata/xarray
count: 1
url: https://github.com/pydata/xarray
- name: zarr-developers/zarr-python
count: 1
url: https://github.com/zarr-developers/zarr-python
- name: torvalds/linux
count: 1
url: https://github.com/torvalds/linux
- name: archlinux
count: 1
url: https://www.archlinux.org
- name: emacs
count: 1
url: https://www.gnu.org/software/emacs/
- name: perl
count: 1
url: https://www.perl.org
- name: lh3/bwa
count: 2
url: https://github.com/lh3/bwa
- name: samtools
count: 1
url: https://github.com/samtools/
- name: voutcn/megahit
count: 1
url: https://github.com/voutcn/megahit
- name: matplotlib/matplotlib
count: 2
url: https://github.com/matplotlib/matplotlib
- name: mwaskom/seaborn
count: 2
url: https://github.com/mwaskom/seaborn
- name: pytorch/pytorch
count: 2
url: https://github.com/pytorch/pytorch
- name: explosion/spacy
count: 2
url: https://github.com/explosion/spaCy
- name: alexdobin/star
count: 1
url: https://github.com/alexdobin/STAR
- name: dpdk
count: 1
url: https://github.com/dpdk
- name: grpc/grpc
count: 1
url: https://github.com/grpc/grpc
- name: ros/ros
count: 3
url: https://github.com/ros/ros
- name: tensorflow/tensorflow
count: 2
url: https://github.com/tensorflow/tensorflow
- name: grame-cncm/faust
count: 1
url: https://github.com/grame-cncm/faust
- name: juce-framework/juce
count: 1
url: https://github.com/juce-framework/JUCE
- name: juliapomdp/pomdps.jl
count: 1
url: https://github.com/JuliaPOMDP/POMDPs.jl
- name: cran
count: 1
url: https://github.com/cran
- name: derrickwood/kraken2
count: 1
url: https://github.com/DerrickWood/kraken2
- name: ablab/spades
count: 1
url: https://github.com/ablab/spades
- name: mikelove/deseq2
count: 1
url: https://github.com/mikelove/DESeq2
- name: theislab/scanpy
count: 1
url: https://github.com/theislab/scanpy
- name: satijalab/seurat
count: 1
url: https://github.com/satijalab/seurat
- name: mskcc/facets
count: 1
url: https://github.com/mskcc/facets
- name: mskcc/nf-core
count: 1
url: https://github.com/nf-core
- name: html
count: 1
url: https://www.w3schools.com/html/
- name: bioconductor
count: 1
url: https://www.bioconductor.org/
- name: nltk
count: 1
url: http://www.nltk.org/
- name: chartbeat-labs/textacy
count: 1
url: https://github.com/chartbeat-labs/textacy
- name: beautifulsoup
count: 2
url: https://launchpad.net/beautifulsoup
- name: rare-technologies/gensim
count: 1
url: https://github.com/RaRe-Technologies/gensim
- name: abosamoor/polyglot
count: 1
url: https://github.com/aboSamoor/polyglot
- name: sloria/textblob
count: 1
url: https://github.com/sloria/TextBlob
- name: clips/pattern
count: 1
url: https://github.com/clips/pattern
- name: flairnlp/flair
count: 1
url: https://github.com/flairNLP/flair
- name: otree-org/otree
count: 1
url: https://github.com/oTree-org/oTree
- name: ubuntu
count: 1
url: https://ubuntu.com/
- name: debian
count: 1
url: https://www.debian.org/
- name: surajgupta/r-source
count: 1
url: https://github.com/SurajGupta/r-source
- name: rclone/rclone
count: 1
url: https://github.com/rclone/rclone
- name: rdatatable/data.table
count: 1
url: https://github.com/Rdatatable/data.table
- name: tidyverse/tidyverse
count: 1
url: https://github.com/tidyverse/tidyverse
- name: topepo/caret
count: 1
url: https://github.com/topepo/caret
open-source-libraries-developed:
- name: deisseroth-lab
count: 1
url: https://github.com/deisseroth-lab
- name: natcap/invest
count: 2
url: https://github.com/natcap/invest
- name: natcap/pygeoprocessing
count: 1
url: https://github.com/natcap/pygeoprocessing
- name: natcap/taskgraph
count: 1
url: https://github.com/natcap/taskgraph
- name: mrforce/tidepipeline
count: 1
url: https://github.com/mrForce/tidePipeline
- name: stanford-mast
count: 1
url: https://github.com/stanford-mast
- name: protege
count: 1
url: https://protege.stanford.edu
- name: bioportal
count: 1
url: https://bioportal.bioontology.org
- name: metadatacenter
count: 1
url: https://metadatacenter.org
- name: stanfordmsl
count: 1
url: https://github.com/StanfordMSL
- name: grf-labs/grf
count: 1
url: https://github.com/grf-labs/grf
- name: grf-labs/policytree
count: 1
url: https://github.com/grf-labs/policytree
- name: grf-labs/sufrep
count: 1
url: https://github.com/grf-labs/sufrep
- name: synth-inference/synthdid
count: 1
url: https://github.com/synth-inference/synthdid
- name: susanathey/casualtree
count: 1
url: https://github.com/susanathey/causalTree
- name: susanathey/mcpanel
count: 1
url: https://github.com/susanathey/MCPanel
- name: rlworkgroup/metaworld
count: 1
url: https://github.com/rlworkgroup/metaworld
- name: cbfinn/maml
count: 1
url: https://github.com/cbfinn/maml
- name: ezliu/dream
count: 1
url: https://github.com/ezliu/dream
- name: sudeepdasari/robonet
count: 1
url: https://github.com/SudeepDasari/RoboNet
- name: abishara/athena_meta
count: 1
url: https://github.com/abishara/athena_meta
- name: bhattlab/bhattlab_workflows
count: 1
url: https://github.com/bhattlab/bhattlab_workflows
- name: salzmanlab/sicilian
count: 1
url: https://github.com/salzmanlab/SICILIAN
- name: lindaszabo/knife
count: 1
url: https://github.com/lindaszabo/KNIFE
- name: juliaolivieri/szs_pipeline
count: 1
url: https://github.com/juliaolivieri/SZS_pipeline
- name: bhattlab
count: 2
url: https://github.com/bhattlab
- name: rohitrrj
count: 1
url: https://github.com/rohitrrj
- name: mayamathur
count: 1
url: https://github.com/mayamathur
- name: stanfordvl/igibson
count: 1
url: https://github.com/StanfordVL/iGibson