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100-days-of-ml-code

100-Days-Of-ML-Code中文版

anndata

Annotated data.

atacseq

Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)

awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

batch-effect-removal-benchmarking

A benchmark of batch-effect correction methods for single-cell RNA sequencing data

chatgpt

Interface to ChatGPT from R

cytofkit2

denglab-npc-genomic-analysis

intro-to-chipseq

Intro to ChIPseq using HPC

maier_et_al_nature_2020

This repository contains scripts used for analysis and figure generation in Maier, B., Leader, A.M., Chen, S.T. et al. A conserved dendritic-cell regulatory program limits antitumour immunity. Nature 580, 257–262 (2020). https://doi.org/10.1038/s41586-020-2134-y

metanet-analysis

Analysis and figure code from Jiang et al.

numpy-ml

Machine learning, in numpy

paper-data

scextras

sclc_atlas-htan

Single-cell atlas of SCLC leveraging scRNA-seq, MIBI, and Vectra imaging, as part of the Human Tumor Atlas Network

tcgacalc

Some requested analyses tools for TCGA work

utility

Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR