Snippy: Rapid haploid variant calling and core SNP phylogeny
Snippy finds SNPs between a haploid reference genome and y...files in a single folder. It can then take a set of Snippy results using the same refere...NP alignment (and ultimately a phylogenomic tree). snippy --cpus 16 --outdir mysnps --r...2037 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...ls and parent-offspring trios Input: BAM (that has been aligned in BWA and Samtools Output: BCF that can be formatted to VCF using bcftools Snippy Description: finds indels...2920 days ago
Snippy: Rapid haploid variant calling and core SNP phylogeny
Snippy finds SNPs between a haploid reference genome and your NGS sequence reads. It will find both substitutions (snps) and insertions/deletions (indels). It will use as many CPUs as you can give it on a single computer (tested to 64 cores). It is designed with speed in mind, and produces a cons...Tags: Snippy, Rapid, haploid, variant, calling, core, SNP, phylogeny, bacteria
2037 days ago