gifford-lab / GEM3

Related projects ⓘ

Alternatives and complementary repositories for GEM3

• WeiqiangZhou / BIRD
  Big data Regression for predicting DNase I hypersensitivity
  ☆30Updated 2 months ago
• gagneurlab / FRASER
  FRASER - Find RAre Splicing Events in RNA-seq
  ☆39Updated last month
• qinqian / lisa
  epigenome analysis to rank transcription factors
  ☆30Updated last year
• aertslab / GENIE3
  GENIE3 (GEne Network Inference with Ensemble of trees) R-package
  ☆27Updated 2 years ago
• hbctraining / Peak_analysis_workshop
  An introduction to various methods/approaches for the analysis of peaks generated from ChIP-seq / CUT&RUN / ATAC-seq
  ☆11Updated this week
• YuLab-SMU / ReactomePA
  Reactome Pathway Analysis
  ☆39Updated 3 weeks ago
• GreenleafLab / motifmatchr
  Fast motif matching in R
  ☆43Updated 10 months ago
• ToolsVanBox / PTATO
  PTa Analysis TOolkit
  ☆11Updated 6 months ago
• francescojm / CRISPRcleanR
  Unsupervised correction of gene independent cell responses to CRISPR-cas9
  ☆48Updated last year
• liulab-dfci / lisa
  epigenome analysis to rank transcription factors
  ☆13Updated 4 years ago
• XueyiDong / LongReadBenchmark
  Benchmarking long-read RNA-seq analysis tools
  ☆25Updated 9 months ago
• klarman-cell-observatory / scPlot
  Single cell interactive plotting tools
  ☆23Updated 4 years ago
• inutano / chip-atlas
  ChIP-Atlas: Browse and analyze all public ChIP/DNase-seq data on your browser
  ☆70Updated this week
• SamBuckberry / RUN-WGCNA
  Wrapper R scripts for performing a weighted-gene co-expression network analysis (WGCNA)
  ☆27Updated 9 years ago
• MiraldiLab / maxATAC
  Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks
  ☆26Updated last month
• nf-core / rnasplice
  rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis
  ☆46Updated this week
• seasoncloud / Alleloscope
  Alleloscope is a method for allele-specific copy number estimation that can be applied to single cell DNA and ATAC sequencing data (separ…
  ☆29Updated last year
• shendurelab / MPRAflow
  A portable, flexible, parallelized tool for complete processing of massively parallel reporter assay data
  ☆31Updated 10 months ago
• satijalab / scChromHMM
  🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…
  ☆24Updated 3 years ago
• bm2-lab / MUSIC
  model-based understanding of single-cell CRISPR screening
  ☆23Updated 7 months ago
• YichaoOU / HemTools
  HemTools: a collection of NGS pipelines and bioinformatic analyses
  ☆66Updated this week
• GreenleafLab / chromVARmotifs
  R package with motifs for use with chromVAR
  ☆25Updated 7 years ago
• JSB-UCLA / scReadSim
  A single cell sequencing read simulator.
  ☆27Updated last month
• biobenkj / compartmap
  Reconstruction of higher order chromatin from scRNA-seq and scATAC-seq
  ☆12Updated last year
• shao-lab / MotifScan
  A motif discovery tool to detect the occurrences of known motifs
  ☆20Updated 3 years ago
• mdozmorov / RNA-seq_notes
  A continually expanding collection of RNA-seq tools
  ☆46Updated last month
• sinanugur / cellsnake
  Cellsnake tool main repo
  ☆33Updated 9 months ago
• abodein / timeOmics
  Time-Course Multi-Omics data integration
  ☆24Updated 7 months ago
• gaolabtools / scNanoGPS
  Single cell Nanopore sequencing data for Genotype and Phenotype
  ☆40Updated 2 months ago
• theislab / pseudodynamics
  Dynamic models for single-cell RNA-seq time series.
  ☆39Updated 6 years ago