Highlights
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gget Public
Forked from pachterlab/gget🧬 gget enables efficient querying of genomic reference databases
Python BSD 2-Clause "Simplified" License UpdatedSep 26, 2024 -
blitzgsea Public
Forked from MaayanLab/blitzgseaFast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for accurate p-value estimation.
Jupyter Notebook Apache License 2.0 UpdatedSep 22, 2024 -
enformer_fine_tuning Public
Forked from shirondru/enformer_fine_tuningFor fine-tuning Enformer using paired WGS & gene expression data
Python UpdatedSep 16, 2024 -
scez Public
Single Cell Analysis, Easy Mode!
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TDC Public
Forked from mims-harvard/TDCTherapeutics Data Commons: Artificial Intelligence Foundation for Therapeutic Science
Jupyter Notebook MIT License UpdatedJul 22, 2024 -
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PrimeKG Public
Forked from mims-harvard/PrimeKGPrecision Medicine Knowledge Graph (PrimeKG)
Jupyter Notebook MIT License UpdatedJul 1, 2024 -
cancer_data Public
Forked from kevinhu/cancer_dataA unified downloader+preprocessor for cancer genomics datasets
Python MIT License UpdatedJun 26, 2024 -
PyDESeq2 Public
Forked from owkin/PyDESeq2A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
Python MIT License UpdatedJun 24, 2024 -
awesome-CRISPR Public
Forked from davidliwei/awesome-CRISPRList of software/websites/databases/other stuff for genome engineering
MIT License UpdatedJun 20, 2024 -
pypage Public
Forked from goodarzilab/pypagepython implementation of the PAGE algorithm
Python MIT License UpdatedJun 10, 2024 -
pvsvg Public
Forked from noamteyssier/pvsvga python wrapper of the vis.js network visualization library with an additional ability to export static SVG
JavaScript MIT License UpdatedMay 24, 2024 -
pager Public
PAGE algorithm run and downstream analysis
Jupyter Notebook MIT License UpdatedMar 30, 2024 -
PosSpacer Public archive
A framework for preprocessing multiplexed CRISPR libraries
Python MIT License UpdatedMar 9, 2024 -
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herken2022_originalcode Public
Forked from bherken/herken2022_originalcodeoriginal code for the manuscript "Environmental challenge rewires functional connections among human genes"
Jupyter Notebook UpdatedDec 30, 2023 -
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REMBRANDTS Public
Forked from csglab/REMBRANDTSREMoving Bias from Rna-seq ANalysis of Differential Transcript Stability
R GNU General Public License v3.0 UpdatedDec 16, 2023 -
CRISPRi-dual-sgRNA-screens Public archive
Forked from josephreplogle/CRISPRi-dual-sgRNA-screensPython MIT License UpdatedDec 11, 2023 -
celligner Public
Forked from broadinstitute/cellignertumor - cancer cell line alignment. Use it on the depmap portal or install it with pip.
Jupyter Notebook The Unlicense UpdatedDec 5, 2023 -
GISEA Public
Genetic Interaction Networks and Pathway Modules
Python MIT License UpdatedOct 28, 2023 -
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adpbulk Public
Forked from noamteyssier/adpbulkpseudobulking on an AnnData object
Python MIT License UpdatedJun 30, 2023 -
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RADAR Public
Forked from scottzijiezhang/RADARThe project for analyzing differential methylation of MeRIP-seq data
R GNU General Public License v3.0 UpdatedMar 1, 2023