Alternatives and similar repositories for cgat-core

Users that are interested in cgat-core are comparing it to the libraries listed below

• mandricigor / imrep
  ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.
  ☆28Updated 5 years ago
• pachterlab / sircel
  Identify cell barcodes from single-cell genomics sequencing experiments
  ☆43Updated 3 years ago
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated last year
• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆34Updated 4 years ago
• mahmoudibrahim / JAMM
  JAMM Peak Finder for Sequencing Datasets
  ☆29Updated 5 years ago
• kundajelab / genomedisco
  Software for comparing contact maps from HiC, CaptureC and other 3D genome data.
  ☆27Updated 7 years ago
• COMBINE-lab / SalmonTools
  Useful tools for working with Salmon output
  ☆38Updated 5 years ago
• qqwang-berkeley / JUM
  A tool for annotation-free differential analysis of tissue-specific pre-mRNA alternative splicing patterns
  ☆28Updated 2 years ago
• gagneurlab / OUTRIDER
  OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data
  ☆53Updated last month
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆29Updated last year
• lamortenera / epicseg
  Chromatin segmentation in R
  ☆19Updated 7 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆36Updated 4 years ago
• murphycj / AGFusion
  Python package to annotate and visualize gene fusions.
  ☆64Updated 11 months ago
• Oshlack / Clinker
  Gene Fusion Visualiser
  ☆51Updated 2 years ago
• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆38Updated last year
• yuifu / millefy
  Millefy: Genome browser-like visualization of single-cell RNA-seq dataset
  ☆29Updated 5 years ago
• openvax / isovar
  Assembly of RNA reads to determine the effect of a cancer mutation on protein sequence
  ☆25Updated 11 months ago
• Dowell-Lab / TFEA
  Transcription Factor Enrichment Analysis
  ☆35Updated last week
• simonvh / fluff
  Fluff is a Python package that contains several scripts to produce pretty, publication-quality figures for next-generation sequencing exp…
  ☆71Updated last year
• yuchaojiang / SCALE
  Allele-Specific Expression by Single-Cell RNA Sequencing
  ☆29Updated 4 years ago
• songlab-cal / scquint
  ☆18Updated last year
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 6 years ago
• meuleman / epilogos
  Methods for summarizing and visualizing multi-biosample functional genomic annotations
  ☆46Updated 5 months ago
• nellore / intropolis
  Exon-exon splice junctions across SRA
  ☆42Updated 4 years ago
• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆37Updated this week
• Teichlab / GPfates
  ☆21Updated 8 years ago
• TheJacksonLaboratory / splicing-pipelines-nf
  Repository for the Anczukow-Lab splicing pipeline
  ☆16Updated 5 months ago
• mozack / vdjer
  V'DJer - B Cell Receptor Repertoire Reconstruction from short read mRNA-Seq data
  ☆29Updated 3 years ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago