Alternatives and similar repositories for JAMM

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

• Danko-Lab / rtfbs_db
  Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
  ☆23Updated 6 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• pachterlab / aggregationDE
  Scripts and software supplement for "Gene-level differential analysis at transcript-level resolution" by Yi, Pimentel, Bray and Pachter
  ☆19Updated 7 years ago
• hms-dbmi / spp
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆42Updated 3 years ago
• GreenleafLab / NucleoATACR
  R package for reading in & working with NucleoATAC outputs
  ☆26Updated 6 years ago
• kauralasoo / wiggleplotr
  A small R package to make sequencing read coverage plots in R.
  ☆38Updated 2 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
  ☆30Updated 3 years ago
• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆37Updated 3 years ago
• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆34Updated 4 years ago
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated last year
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆29Updated 10 months ago
• ParkerLab / atactk
  A toolkit for working with ATAC-seq data.
  ☆24Updated last year
• Danko-Lab / tutorials
  Tutorials covering various topics in genomic data analysis.
  ☆17Updated 6 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 10 months ago
• dphansti / mango
  chia pet analysis software
  ☆25Updated 6 years ago
• pachterlab / sircel
  Identify cell barcodes from single-cell genomics sequencing experiments
  ☆43Updated 3 years ago
• nuno-agostinho / psichomics
  Interactive R package to quantify, analyse and visualise alternative splicing
  ☆37Updated this week
• lamortenera / epicseg
  Chromatin segmentation in R
  ☆19Updated 7 years ago
• GreenleafLab / chromVARmotifs
  R package with motifs for use with chromVAR
  ☆28Updated 7 years ago
• vivekbhr / Subread_to_DEXSeq
  Scripts to import your FeatureCounts output into DEXSeq
  ☆33Updated 6 years ago
• jmw86069 / splicejam
  Sashimi plots for RNA-seq data using detected transcripts
  ☆28Updated 3 months ago
• AstraZeneca-NGS / disambiguate
  Disambiguation algorithm for reads aligned to human and mouse genomes using Tophat or BWA mem
  ☆31Updated 7 years ago
• bartongroup / RATS
  Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.
  ☆34Updated 3 years ago
• satijalab / scChromHMM
  🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…
  ☆28Updated 3 years ago
• yuchaojiang / SCALE
  Allele-Specific Expression by Single-Cell RNA Sequencing
  ☆28Updated 4 years ago
• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆34Updated 3 years ago
• thelovelab / tximeta
  Transcript quantification import with automatic metadata detection
  ☆68Updated last month
• meuleman / epilogos
  Methods for summarizing and visualizing multi-biosample functional genomic annotations
  ☆46Updated 3 months ago
• kundajelab / idr
  IDR
  ☆31Updated 2 years ago