Alternatives and similar repositories for gistic2:

Users that are interested in gistic2 are comparing it to the libraries listed below

• getzlab / MutSig2CV
  MutSig2CV from Lawrence et al. 2014
  ☆31Updated 4 years ago
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆61Updated 4 years ago
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆41Updated 4 years ago
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆55Updated 2 weeks ago
• AmpliconSuite / AmpliconSuite-pipeline
  A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior …
  ☆63Updated 2 weeks ago
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆57Updated 4 years ago
• FunGeST / Palimpsest
  An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
  ☆70Updated 9 months ago
• icbi-lab / nextNEOpi
  nextNEOpi: a comprehensive pipeline for computational neoantigen prediction
  ☆69Updated 3 months ago
• broadinstitute / PhylogicNDT
  ☆71Updated 10 months ago
• liulab-dfci / MAGeCK
  Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout (MAGeCK) is a computational tool to identify important genes from the recent gen…
  ☆28Updated 4 years ago
• marvin-jens / find_circ
  tools to find circRNAs in RNA-seq data
  ☆42Updated 7 years ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆39Updated last year
• McGranahanLab / TcellExTRECT
  ☆47Updated 2 months ago
• Nik-Zainal-Group / signature.tools.lib
  R package containing useful functions for mutational signature analysis
  ☆80Updated this week
• aeeckhou / shallowHRD
  This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …
  ☆33Updated 8 months ago
• ylab-hi / ScanExitron
  A computational workflow for exitron splicing identification
  ☆12Updated 6 months ago
• ucdavis-bioinformatics-training / 2017_2018-single-cell-RNA-sequencing-Workshop-UCD_UCB_UCSF
  2017_2018 single cell RNA sequencing Workshop UCD_UCB_UCSF
  ☆36Updated 6 years ago
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆30Updated last year
• broadinstitute / RNA_MUTECT_1.0-1
  ☆38Updated 5 years ago
• single-cell-genetics / cellSNP
  Pileup biallelic SNPs from single-cell and bulk RNA-seq data
  ☆77Updated 2 years ago
• scottzijiezhang / m6A-seq_analysis_workflow
  A pipeline to process m6A-seq data and down stream analysis.
  ☆43Updated 4 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆27Updated 2 years ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆38Updated 3 years ago
• Bioconductor / copy-number-analysis
  Explore, compare, and evaluate Bioconductor packages related to genomic copy number analysis
  ☆21Updated 2 years ago
• dariober / cnv_facets
  Somatic copy variant caller (CNV) for next generation sequencing
  ☆70Updated 6 months ago
• cboix / EPIMAP_ANALYSIS
  Epimap processing and analysis code repository
  ☆33Updated 2 years ago
• MonashBioinformaticsPlatform / RSeQC
  fork of RSeQC python RNAseq metrics suit of tools
  ☆48Updated 6 years ago
• sandberg-lab / Smart-seq3
  Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).
  ☆51Updated 3 years ago
• 3UTR / DaPars2
  Dynamics analysis of Alternative PolyAdenylation from RNA-seq
  ☆57Updated last year
• bioinfo-pf-curie / TMB
  Tumor Mutational Burden
  ☆58Updated 6 months ago