Alternatives and similar repositories for modules

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

• QingliGuo / FFPEsig
  Codes and Data for FFPEsig manuscript
  ☆17Updated last year
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆29Updated 9 months ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• umccr / umccrise
  DRAGEN Tumor/Normal workflow post-processing
  ☆25Updated 2 years ago
• viq854 / lichee
  Multi-sample cancer phylogeny reconstruction
  ☆36Updated 8 years ago
• WGLab / SeqMule
  Automated human exome/genome variants detection from FASTQ files
  ☆23Updated 4 years ago
• nghiavtr / FuSeq
  ☆33Updated 3 years ago
• mskcc / ngs-filters
  Filters for false-positive mutation calls in NGS
  ☆34Updated 6 years ago
• smshuai / DriverPower
  DriverPower
  ☆26Updated 11 months ago
• chrisamiller / copyCat
  a parallel R package for detecting copy-number alterations from short sequencing reads
  ☆23Updated 4 years ago
• kgori / sigfit
  Flexible Bayesian inference of mutational signatures
  ☆38Updated 2 years ago
• umccr / vcf_stuff
  📊Evaluating, filtering, comparing, and visualising VCF
  ☆28Updated 2 years ago
• CGGOxford / Opossum
  Opossum is a tool to pre-process RNA-seq reads prior to variant calling.
  ☆28Updated 7 years ago
• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆42Updated last year
• riverlee / pileup2base
  Parse samtools pileup file to get how many bases and what kind of bases are called
  ☆14Updated last year
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆25Updated 7 years ago
• pughlab / VisCap
  VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number va…
  ☆22Updated 6 years ago
• ndbrown6 / MSK-GRAIL-TECHVAL
  High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants
  ☆22Updated 5 years ago
• sdchandra / CNAclinic
  ☆26Updated last year
• talkowski-lab / SV-Adjudicator
  ☆25Updated 7 years ago
• smithlabcode / abismal
  Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
  ☆20Updated last week
• cortes-ciriano-lab / ReConPlot
  ☆24Updated last year
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆32Updated 2 years ago
• parklab / MuSiCal
  A comprehensive toolkit for mutational signature analysis
  ☆42Updated last year
• pughlab / bamgineer
  Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets
  ☆38Updated 5 years ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• mhalushka / miRge
  miRge - microRNA alignment software for small RNA-seq data, now at v2.0
  ☆27Updated 3 years ago
• mcmero / SVclone
  A computational method for inferring the cancer cell fraction of tumour structural variation from whole-genome sequencing data.
  ☆42Updated 4 months ago
• bioinform / breakseq2
  BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants
  ☆25Updated 9 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