Alternatives and similar repositories for MuSiCal

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

• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆38Updated last year
• Xinglab / rMATS-long
  ☆32Updated 9 months ago
• cortes-ciriano-lab / ReConPlot
  ☆23Updated 9 months ago
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆29Updated 7 months ago
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆31Updated 2 years ago
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆60Updated 3 months ago
• hoffmangroup / umap
  ☆28Updated 2 months ago
• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆34Updated 4 years ago
• gagneurlab / OUTRIDER
  OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data
  ☆54Updated last month
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated 5 months ago
• ferrannadeu / IgCaller
  Python program designed to reconstruct immunoglobulin gene rearrangements and oncogenic translocations from WGS, WES and capture NGS in l…
  ☆20Updated 2 years ago
• bartongroup / RATS
  Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.
  ☆34Updated 3 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• cancerit / alleleCount
  Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…
  ☆45Updated 3 years ago
• WansonChoi / HATK
  A collection of modules to process and analyze IMGT-HLA sequences.
  ☆28Updated 2 years ago
• zhongw2 / GeneTEFlow
  ☆23Updated 4 years ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• hellbelly / BS-Snper
  ☆38Updated 4 years ago
• heathsc / gemBS
  gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (…
  ☆33Updated 3 years ago
• a2iEditing / deNovo-Detect
  ☆13Updated 2 years ago
• davetang / defining_genomic_regions
  Define regions in the genome
  ☆32Updated 3 years ago
• kgori / sigfit
  Flexible Bayesian inference of mutational signatures
  ☆36Updated 2 years ago
• wwylab / MuSE
  Somatic point mutation caller
  ☆31Updated 4 months ago
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆63Updated 4 months ago
• nghiavtr / FuSeq
  ☆33Updated 3 years ago
• bcgsc / HLAminer
  ⛏ HLA predictions from NGS shotgun data
  ☆54Updated 3 months ago
• ShixiangWang / sigflow
  Sigflow: Streamline Analysis Workflows for Mutational Signatures, https://github.com/ShixiangWang/sigflow/pkgs/container/sigflow
  ☆27Updated 11 months ago
• mskcc / ngs-filters
  Filters for false-positive mutation calls in NGS
  ☆34Updated 6 years ago
• thelovelab / rnaseqDTU
  RNA-seq workflow: differential transcript usage
  ☆22Updated 2 years ago
• gagneurlab / absplice
  ☆39Updated 2 months ago