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ac-diamond

AC-DIAMOND is a DNA-protein alignment tool

allhic

ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data

archr_2020

Publication Page for ArchR Manuscript 2020

autoreg

A research compendium: Transcriptional regulation of autophagy during adipocyte differentiation

auttoflux

Pipeline for high-throughput analysis of RFP/GFP ratios in vacuoles

awesome-single-cell

List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.

backspin

Biclustering algorithm

baidupcs-web

bioinformatics_links

biotrainee

bpscrnaseq

cellnet

CellNet: network biology applied to stem cell engineering

chip-seq-analysis

ChIP-seq analysis notes from Tommy Tang

covid19

🦠 Regularly updated list of publicly available datasets with single-cell (scRNAseq) and T-cell/antibody immune repertoire (AIRR / RepSeq / immunosequencing) data of COVID-19 patients with SARS-CoV-2.

cytofworkflow

dca

Deep count autoencoder for denoising scRNA-seq data

excelerate-scrnaseq

Single RNA-seq data analysis with R (Finland, May, 2019)

exprset

fca_liver

All software used for “Decoding human fetal liver haematopoiesis” (Popescu, Botting, Stephenson et al., 2019).

geo

hca_benchmarking

This repository contains HCA Benchmarking codes

idmap

indrops

Pipeline for processing inDrops sequencing data

jialab-ucr.github.io

jiuxuan-li

masif

MaSIF- Molecular surface interaction fingerprints. Geometric deep learning to decipher patterns in molecular surfaces.

matchscore2

metabric

metadegth

metaDEGth: meta-analysis of Differentially Expressed Genes using parametric, empirically-derived P-value distributions

minfi-workflow

Minfi workfow starting from GEO data