Alternatives and similar repositories for gotcloud:

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

• macarthur-lab / igv_utils
  utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.
  ☆48Updated 5 years ago
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 5 years ago
• hall-lab / sv-pipeline
  Pipeline for structural variation detection in cohorts
  ☆49Updated 3 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• arq5x / bedtools-protocols
  ☆78Updated 11 years ago
• rgcgithub / clamms
  CLAMMS is a scalable tool for detecting common and rare copy number variants from whole-exome sequencing data.
  ☆29Updated 4 years ago
• slzhao / QC3
  QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.
  ☆32Updated 8 years ago
• pughlab / bamgineer
  Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets
  ☆37Updated 4 years ago
• mhguo1 / TRAPD
  Burden testing against public controls
  ☆50Updated last year
• ImperialCardioGenetics / UTRannotator
  VEP Plugin to annotate high-impact five prime UTR variants
  ☆26Updated 7 months ago
• chrisamiller / readDepth
  R package for inferring copy number from read depth
  ☆32Updated 2 years ago
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆50Updated 8 months ago
• IARCbioinfo / gatk4-GenotypeGVCFs-nf
  Joint calling of gVCF, following GATK4 Best Practices
  ☆12Updated 6 years ago
• bahlolab / bioinfotools
  Documenting usage and experience with bioinformatic tools
  ☆41Updated 9 years ago
• yuchaojiang / CODEX2
  Full-spectrum copy number variation detection by high-throughput DNA sequencing
  ☆37Updated 3 years ago
• GeneDx / scramble
  ☆39Updated last year
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆97Updated 4 years ago
• PubuduSaneth / cnvScan
  CNV screening and annotation tool
  ☆25Updated 8 years ago
• Genotek / ClassifyCNV
  ClassifyCNV: a tool for clinical annotation of copy-number variants
  ☆62Updated last year
• CshlSiepelLab / LINSIGHT
  ☆25Updated 10 months ago
• gatk-workflows / gatk4-exome-analysis-pipeline
  This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…
  ☆52Updated 4 years ago
• nygenome / Conpair
  Concordance and contamination estimator for tumor–normal pairs
  ☆58Updated 6 months ago
• biocore-ntnu / snpflip
  Report reverse and ambiguous strand SNPs in GWAS data
  ☆32Updated 5 years ago
• Jeltje / varscan2
  Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2
  ☆29Updated 7 years ago
• pughlab / ConsensusCruncher
  ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…
  ☆21Updated 2 years ago
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated last year
• walaj / VariantBam
  Filtering and profiling of next-generational sequencing data using region-specific rules
  ☆77Updated last year
• ratschlab / RiboDiff
  RiboDiff: Tool to detect changes in translational efficiency based on ribosome footprinting data
  ☆23Updated 8 years ago
• ikalatskaya / ISOWN
  ☆46Updated 5 years ago
• Illumina / GTCtoVCF
  Script to convert GTC/BPM files to VCF
  ☆46Updated 7 months ago