Alternatives and similar repositories for AfterQC

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

• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆234Updated 2 months ago
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆319Updated 3 years ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆160Updated 2 years ago
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆271Updated last year
• OpenGene / MutScan
  Detect and visualize target mutations by scanning FastQ files directly
  ☆153Updated 3 years ago
• hall-lab / speedseq
  A flexible framework for rapid genome analysis and interpretation
  ☆317Updated 2 years ago
• bedops / bedops
  BEDOPS: high-performance genomic feature operations
  ☆343Updated 2 months ago
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆254Updated 2 years ago
• arq5x / lumpy-sv
  lumpy: a general probabilistic framework for structural variant discovery
  ☆331Updated 3 years ago
• pcingola / SnpEff
  ☆279Updated 5 months ago
• gatk-workflows / gatk4-data-processing
  Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools
  ☆153Updated 2 years ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆247Updated 2 weeks ago
• OpenGene / GeneFuse
  Gene fusion detection and visualization
  ☆128Updated 3 years ago
• genome-in-a-bottle / giab_data_indexes
  This repository contains data indexes from NIST's Genome in a Bottle project.
  ☆250Updated last year
• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆244Updated 3 months ago
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆224Updated 3 years ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆215Updated last week
• timflutre / trimmomatic
  Read trimming tool for Illumina NGS data.
  ☆139Updated 10 years ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆198Updated last year
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆269Updated 5 months ago
• WGLab / doc-ANNOVAR
  Documentation for the ANNOVAR software
  ☆242Updated 2 weeks ago
• dpryan79 / ChromosomeMappings
  This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.
  ☆242Updated 2 years ago
• RealTimeGenomics / rtg-tools
  RTG Tools: Utilities for accurate VCF comparison and manipulation
  ☆320Updated last month
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆261Updated last week
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆231Updated last week
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆189Updated this week
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆276Updated last year
• sigven / pcgr
  Personal Cancer Genome Reporter (PCGR)
  ☆266Updated this week
• luntergroup / octopus
  Bayesian haplotype-based mutation calling
  ☆313Updated 4 months ago
• The-Sequence-Ontology / Specifications
  GFF and GVF specification documents
  ☆214Updated last year