miguelpmachado

High performance tool for working with SAM and BAM files

A Bayesian variant detector designed to find SNPs, indels, MNPs, and complex events

PLINK is a whole genome association analysis toolset to perform basic, large-scale analyses

PLINK is a whole genome association analysis toolset to perform basic, large-scale analyses

A Tool to Annotate and Prioritize Exome Variants

VEP determines the effect of your variants (image with Ubuntu 16.04)

Convert genome coordinates between assemblies

The toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping

A set of Java command line tools for manipulating high-throughput sequencing (HTS) data and formats.

Samtools is a suite of programs for interacting with high-throughput sequencing data

BWA is a software for mapping low-divergent sequences against a large reference genome

Set of programs based on htslib to benchmark variant calls against gold standard truth datasets

Utilities for variant calling and manipulating VCFs and BCFs

The swiss army knife for genome arithmetic

A C library for reading/writing high-throughput sequencing data

Bowtie 2 is a fast and memory-efficient tool for aligning reads to long reference sequences

Blast+ built for LOBO cluster architecture

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