Alternatives and similar repositories for haystack_bio:

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

• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆34Updated 3 years ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 5 years ago
• GreenleafLab / chromVARmotifs
  R package with motifs for use with chromVAR
  ☆25Updated 7 years ago
• rajanil / msCentipede
  A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.
  ☆26Updated 8 years ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆28Updated 2 years ago
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated last year
• czbiohub-sf / cerebra
  A tool for fast and accurate summarizing of variant calling format (VCF) files
  ☆60Updated 2 years ago
• ParkerLab / atactk
  A toolkit for working with ATAC-seq data.
  ☆24Updated 9 months ago
• pachterlab / NYMP_2018
  ☆28Updated 6 years ago
• GreenleafLab / NucleoATACR
  R package for reading in & working with NucleoATAC outputs
  ☆26Updated 6 years ago
• crazyhottommy / scATACutils
  R/Bioconductor package for working with 10x scATACseq data
  ☆38Updated last year
• satijalab / scChromHMM
  🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…
  ☆27Updated 3 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 2 years ago
• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆37Updated 10 months ago
• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆34Updated 3 years ago
• YeoLab / singlecell_pnm
  Code and figures accompanying the paper, "Single-cell alternative splicing analysis with Expedition reveals splicing dynamics during neu…
  ☆20Updated 7 years ago
• thelovelab / tximeta
  Transcript quantification import with automatic metadata detection
  ☆67Updated last month
• BUStools / BUS_notebooks_python
  ☆23Updated 5 years ago
• YeoLab / outrigger
  Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data
  ☆65Updated 4 years ago
• hms-dbmi / spp
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆42Updated 3 years ago
• markrobinsonuzh / scRNAseq_clustering_comparison
  A study to compare methods for clustering of scRNA-seq data
  ☆42Updated 7 months ago
• ncbi / scPopCorn
  A python tool to do comparative analysis of mulitple single cell datasets.
  ☆22Updated 5 years ago
• kdkorthauer / dmrseq
  R package for Inference of differentially methylated regions (DMRs) from bisulfite sequencing
  ☆58Updated 5 months ago
• qinqian / lisa
  epigenome analysis to rank transcription factors
  ☆30Updated 2 years ago
• yuchaojiang / SCALE
  Allele-Specific Expression by Single-Cell RNA Sequencing
  ☆28Updated 4 years ago
• lagelab / quack
  Machine learning algorithm to predict biological pathway relationships based on functional genomics networks
  ☆20Updated 6 years ago
• ParkerLab / bioinf545
  ATAC-seq lab for BIOINF545
  ☆25Updated 3 weeks ago
• mikelove / alpine
  Modeling and correcting fragment sequence bias for RNA-seq
  ☆24Updated 9 months ago
• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆37Updated 2 years ago
• rcavalcante / annotatr
  Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…
  ☆26Updated 6 months ago