Alternatives and similar repositories for gtex

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

• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆35Updated 9 months ago
• hellbelly / BS-Snper
  ☆38Updated 4 years ago
• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆36Updated 3 years ago
• ParkerLab / atactk
  A toolkit for working with ATAC-seq data.
  ☆24Updated last year
• ChrisMaherLab / ClonEvol
  ☆13Updated 7 years ago
• dnaase / Bis-tools
  A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…
  ☆32Updated 3 years ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆31Updated 2 years ago
• GreenleafLab / NucleoATACR
  R package for reading in & working with NucleoATAC outputs
  ☆26Updated 6 years ago
• FunGeST / Palimpsest
  An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
  ☆71Updated last year
• pgxcentre / region-plot
  A tool to plot significant regions of GWAS
  ☆30Updated 2 years ago
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆29Updated 6 months ago
• PeeperLab / CopywriteR
  DNA copy number detection from off-target sequence data
  ☆32Updated 7 years ago
• mskcc / facets-suite
  Utility functions for FACETS
  ☆38Updated last year
• FJD-CEPH / aCNViewer
  Comprehensive genome-wide visualization of absolute copy number and copy neutral variations
  ☆29Updated 6 years ago
• dphansti / mango
  chia pet analysis software
  ☆25Updated 6 years ago
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 6 years ago
• eyzhao / hrdetect-pipeline
  ☆36Updated 6 years ago
• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆35Updated 4 years ago
• kundajelab / ataqc
  ☆17Updated 6 years ago
• hms-dbmi / spp
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆43Updated 4 years ago
• francois-a / fastqtl
  Enhanced version of the FastQTL QTL mapper
  ☆68Updated 2 years ago
• saralpulit / gwas-scripts
  A repository containing various scripts useful for performing quality control on data from genome-wide association studies and visualizin…
  ☆20Updated 7 years ago
• Phillip-a-richmond / AnnotateVariants
  This is a pipeline for variant annotation in the diagnosis of rare genetic disorders. It relies on open source data and has instructions …
  ☆17Updated 2 years ago
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆31Updated 2 years ago
• ksamocha / de_novo_scripts
  Script used to identify de novo variants from sequencing data.
  ☆12Updated 8 years ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated 5 months ago
• chrisamiller / copyCat
  a parallel R package for detecting copy-number alterations from short sequencing reads
  ☆23Updated 4 years ago
• nskvir / RepEnrich
  RepEnrich is a method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆28Updated 3 years ago
• rcavalcante / annotatr
  Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…
  ☆27Updated last month