akanksha-sachan
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B_Cell_States Public
Data analysis of B cell scRNA/multi-ome/perturb-seq to characterize states and their regulatory drivers
Jupyter Notebook UpdatedDec 28, 2024 -
senescence_chromatin Public
Chromatin clusters formed due to DNA damage induced senescence cause systemic gene silencing. Data analysis pipeline for scRNA data from senescent cells.
Jupyter Notebook UpdatedDec 10, 2024 -
scfocus Public
Forked from PeterPonyu/scfocusSingle-cell reinforcement learning for lineage focusing
Jupyter Notebook MIT License UpdatedNov 20, 2024 -
scimilarity Public
Forked from Genentech/scimilarityA unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to represent new studies without additional training.
Python Other UpdatedNov 20, 2024 -
TA_muscle_ageing Public
snRNA analysis from mouse models of ERCC1 knock-out
Jupyter Notebook UpdatedOct 20, 2024 -
gamengen-pytorch Public
Forked from lucidrains/genie2-pytorchImplementation of a framework for Gamengen in Pytorch
Python MIT License UpdatedSep 13, 2024 -
ERCC1_iPSC_analysis Public
ERCC1 KO performed in human iPSC stem cells maturing to cardiomyocytes (bulk RNA seq+mass-spec proteomics)
Jupyter Notebook UpdatedAug 26, 2024 -
3D_chromatin_hubs Public
clustering of 3D genomic data to identify regulatory hubs
Jupyter Notebook UpdatedAug 4, 2024 -
DL_tutorials Public
Forked from pytorch/tutorialsPyTorch tutorials.
Jupyter Notebook BSD 3-Clause "New" or "Revised" License UpdatedJul 27, 2024 -
SLIDE_runs Public
logging slide latent factor analysis runs on different datasets
R UpdatedJul 18, 2024 -
dictys_dev Public
Forked from pinellolab/dictysDebug and dev dictys pkg
Python GNU Affero General Public License v3.0 UpdatedJul 12, 2024 -
RegDiffusion Public
Forked from TuftsBCB/RegDiffusionDiffusion model for gene regulatory network inference.
Python Apache License 2.0 UpdatedMay 23, 2024 -
LEAP_Hand_Sim Public
Forked from leap-hand/LEAP_Hand_Simgood coding practises
Python MIT License UpdatedMay 18, 2024 -
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borzoi-pytorch Public
Forked from johahi/borzoi-pytorchThe Borzoi model from Calico, but ported to Pytorch
Jupyter Notebook Apache License 2.0 UpdatedSep 7, 2023 -
enformer-pytorch Public
Forked from lucidrains/enformer-pytorchImplementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch
Python MIT License UpdatedJun 20, 2023 -
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ALLCools Public
Forked from lhqing/ALLCoolsToolkit for single-cell DNA methylation analysis.
Python MIT License UpdatedJun 13, 2023 -
GenomicsBorscht Public
Forked from FilippNikitin/GeonomicsBorschtPython MIT License UpdatedMay 9, 2023 -
dnaMethylHiC Public
Forked from lhqing/wmb2023Code and data sharing of Liu et al. 2023 manuscript
Jupyter Notebook MIT License UpdatedApr 18, 2023 -
juicer Public
Forked from ruochiz/juicerA One-Click System for Analyzing Loop-Resolution Hi-C Experiments
Shell MIT License UpdatedNov 6, 2020 -