Alternatives and similar repositories for checkQC

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

• gogetdata / ggd-recipes
  conda recipes for genomic data
  ☆84Updated 4 years ago
• COMBINE-lab / wasabi
  Prepare Sailfish and Salmon output for downstream analysis
  ☆42Updated 6 years ago
• AstraZeneca-NGS / simple_sv_annotation
  Simplify snpEff annotations for interesting cases
  ☆22Updated 6 years ago
• nh13 / snakeparse
  Making Snakemake workflows into full-fledged command line tools since 1999.
  ☆51Updated 7 years ago
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated 2 years ago
• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆56Updated 4 years ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆58Updated 3 years ago
• seandavi / GFFutils
  Convert, explore, and manipulate GFF and GTF files (used in bioinformatics) using a sqlite-based approach
  ☆36Updated 14 years ago
• slzarate / parliament2
  Runs a combination of tools to generate structural variant calls on short-read whole-genome sequencing data
  ☆22Updated 3 years ago
• jkbonfield / crumble
  Exploration of controlled loss of quality values for compressing CRAM files
  ☆36Updated 2 years ago
• brentp / gsort
  sort genomic data
  ☆36Updated 5 years ago
• brentp / cigar
  simple library for dealing with SAM cigar strings
  ☆41Updated 4 years ago
• ssadedin / bazam
  A read extraction and realignment tool for next generation sequencing data
  ☆103Updated 2 years ago
• bioinform / breakseq2
  BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants
  ☆25Updated 9 years ago
• rgcgithub / clamms
  CLAMMS is a scalable tool for detecting common and rare copy number variants from whole-exome sequencing data.
  ☆30Updated 4 years ago
• bow / crimson
  Bioinformatics tool outputs converter to JSON or YAML
  ☆35Updated 4 months ago
• ekg / bamaddrg
  adds sample names and read-group (RG) tags to BAM alignments
  ☆51Updated 4 years ago
• s-andrews / BamQC
  Mapped QC analysis program
  ☆44Updated 7 years ago
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• tommyau / bamclipper
  Remove primer sequence from BAM alignments by soft-clipping
  ☆31Updated 5 years ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆29Updated last year
• nygenome / Lancet2
  v2.x of the microassembly based somatic variant caller
  ☆23Updated 3 months ago
• churchill-lab / g2gtools
  Personal diploid genome creation and coordinate conversion
  ☆30Updated 6 months ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated last year
• ewels / Labrador
  A web based tool to manage and automate the processing of publicly available datasets.
  ☆39Updated 4 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• EI-CoreBioinformatics / portcullis
  Splice junction analysis and filtering from BAM files
  ☆42Updated 3 years ago
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 3 years ago
• vpc-ccg / calib
  Calib clusters barcode tagged paired-end reads based on their barcode and sequence similarity.
  ☆39Updated 2 years ago
• langmead-lab / reference_flow
  Reducing reference bias using multiple population reference genomes
  ☆34Updated last year