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The gkno launcher for executing tools or pipelines
Human genome reference build GRCh38/hg38
Human genome reference build GRCh37/hg19
a simple C++ library for parsing and manipulating VCF files
Mirror of snpEff variant annotation and effect prediction tool.
gkno resources for use in tutorials
A tool set for short variant discovery in genetic sequence data.
Bayesian haplotype-based polymorphism discovery and genotyping.
gkno resources for Homo sapiens
Scripts for generating genomic regions for use with other tools.
samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.
RUFUS k-mer based genomic variant detection
a lightweight db framework for disease and population genetics.
A powerful toolset for genome arithmetic.
Helper repo for fetching NCBI BLAST binaries (http://blast.ncbi.nlm.nih.gov/Blast.cgi)
Tools (written in C using htslib) for manipulating next-generation sequencing data
C library for high-throughput sequencing data formats
Library for handling tool and pipeline configuration files
Parse a 1000G sequence index and produce files for use with gkno
lumpy: a general probabilistic framework for structural variant discovery
Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants at single-based resolution from next-gen sequence data. It uses a pattern growth approach to identify the breakpoints of these variants from paired-end short reads.
Mirror of Genome STRiP from the Broad Institute
Fast Structural Variation Detection Toolbox
A set of scripts available within gkno
genome simulation across a population with zeta-distributed allele frequency, snps, insertions, deletions, and multi-nucleotide polymorphisms