Alternatives and similar repositories for ChromDiff

Users that are interested in ChromDiff are comparing it to the libraries listed below

• GreenleafLab / NucleoATACR
  R package for reading in & working with NucleoATAC outputs
  ☆26Updated 6 years ago
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆33Updated 3 years ago
• ParkerLab / ataqv
  A toolkit for QC and visualization of ATAC-seq results.
  ☆71Updated 9 months ago
• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆36Updated 3 years ago
• joepickrell / fgwas
  Functional genomics and genome-wide association studies
  ☆67Updated 7 years ago
• natsuhiko / rasqual
  Robust Allele Specific Quantification and quality controL
  ☆40Updated 3 years ago
• JEFworks / liger
  Lightweight Iterative Gene set Enrichment in R
  ☆57Updated last year
• BUStools / BUS_notebooks_python
  ☆23Updated 6 years ago
• YosefLab / ImpulseDE2
  ☆41Updated 3 years ago
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆29Updated last year
• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆45Updated 2 years ago
• crazyhottommy / scRNA-seq-workshop-Fall-2019
  Harvard FAS informatics scRNAseq workshop website
  ☆38Updated 6 years ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆32Updated 3 years ago
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated 6 months ago
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆55Updated 4 years ago
• Danko-Lab / rtfbs_db
  Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
  ☆23Updated 6 years ago
• ge11232002 / TFBSTools
  Software Package for Transcription Factor Binding Site (TFBS) Analysis
  ☆30Updated 6 months ago
• andreyshabalin / MatrixEQTL
  Matrix eQTL: Ultra fast eQTL analysis via large matrix operations
  ☆85Updated 2 years ago
• pachterlab / kallisto-transcriptome-indices
  Reference transcriptome indices build from kallisto for popular organisms
  ☆43Updated last year
• slowkow / snpsea
  Identify cell types and pathways affected by genetic risk loci.
  ☆36Updated last year
• FunGeST / Palimpsest
  An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
  ☆71Updated last year
• yuchaojiang / SCALE
  Allele-Specific Expression by Single-Cell RNA Sequencing
  ☆29Updated 4 years ago
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆64Updated 4 years ago
• MarioniLab / EmptyDrops2017
  Code for the empty droplet and cell detection project from the HCA Hackathon.
  ☆21Updated 6 years ago
• jokergoo / rGREAT
  GREAT Analysis - Functional Enrichment on Genomic Regions
  ☆90Updated 6 months ago
• Danko-Lab / tutorials
  Tutorials covering various topics in genomic data analysis.
  ☆16Updated 6 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆28Updated 2 years ago
• ParkerLab / atactk
  A toolkit for working with ATAC-seq data.
  ☆24Updated last year
• HumanCellAtlas / skylab
  Soon to be deprecated in favor of broadinstitute/warp github repo. Previously: Secondary analysis pipelines
  ☆48Updated 6 months ago
• waldronlab / HGNChelper
  Identify and correct invalid gene symbols
  ☆59Updated 10 months ago