BamTools provides a fast, flexible C++ API & toolkit for reading, writing, and managing BAM files.

A tool that finds regions of similarity between biological sequences. The program compares nucleotide or protein sequences to sequence databases and c

Provides measures for quantitative assessment of genome assembly, gene set, and transcriptome completeness based on evolutionarily informed expectatio

Multiple sequence alignment software. The name is occassionally spelled as ClustalOmega, Clustal Ω, ClustalΩ, Clustal O, ClustalO.

Sequence aligner for protein and translated DNA searches and functions as a drop-in replacement for the NCBI BLAST software tools. It is suitable for

This tool aims to provide a QC report which can spot problems or biases which originate either in the sequencer or in the starting library material. I

This tool aims to provide a QC report which can spot problems or biases which originate either in the sequencer or in the starting library material. I

Collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing.

The Genome Analysis Toolkit (GATK) is a set of bioinformatic tools for analyzing high-throughput sequencing (HTS) and variant call format (VCF) data.

The Genome Analysis Toolkit (GATK) is a set of bioinformatic tools for analyzing high-throughput sequencing (HTS) and variant call format (VCF) data.

The Genome Analysis Toolkit (GATK) is a set of bioinformatic tools for analyzing high-throughput sequencing (HTS) and variant call format (VCF) data.

program for filtering, converting and manipulating GFF files

This tool is used for searching sequence databases for homologs of protein sequences, and for making protein sequence alignments. It implements method

High-performance visualization tool for interactive exploration of large, integrated datasets. It supports a wide variety of data types and format, in

The igvtools utility provides a set of tools for pre-processing data files.

MAFFT (Multiple Alignment using Fast Fourier Transform) is a high speed multiple sequence alignment program.

Refgenie manages storage, access, and transfer of reference genome resources. It provides command-line and Python interfaces to download pre-built ref

This tool is a high performance modern robust and fast tool (and library), written in the D programming language, for working with SAM, BAM and CRAM f

This tool is a high performance modern robust and fast tool (and library), written in the D programming language, for working with SAM, BAM and CRAM f

A software package with various utilities for processing alignments in the SAM format, including variant calling and alignment viewing.

A wrapper tool around Cutadapt and FastQC to consistently apply quality and adapter trimming to FastQ files, with some extra functionality for MspI-di

A flexible read trimming tool for Illumina NGS data