RECENT POSTS

Do you have GDPR compliance issues ?

Check out Legiscope a GDPR compliance software, that will save you weeks of work, automating your documentation, the training of your teams and all processes you need to keep your organisation compliant with privacy regulations

Pbseqan

Jul 20, 2023

Pacific Biosciences patched and stripped down SeqAn

This is a public fork of the SeqAn Library v2.0.0, stripped down to just the header files and with a few custom fixes.

Some of PacBio’s tools depend on SeqAn for efficient implementations of some common data-structures for sequence analysis A huge thanks to SeqAn development team!. However PacBio only uses a small amount of the SeqAn code-base, and in addition requires a few minor fixes that didn’t make it in to the initial release of SeqAn v2.0.0. Thus to minimize confusion and band-width, we will depend on this fork instead of SeqAn proper.

Checkout these related ports:
  • Wise - Intelligent algorithms for DNA searches
  • Wfa2-lib - Exact gap-affine algorithm using homology to accelerate alignment
  • Vt - Discovers short variants from Next Generation Sequencing data
  • Vsearch - Versatile open-source tool for metagenomics
  • Viennarna - Alignment tools for the structural analysis of RNA
  • Velvet - Sequence assembler for very short reads
  • Vcftools - Tools for working with VCF genomics files
  • Vcflib - C++ library and CLI tools for parsing and manipulating VCF files
  • Vcf2hap - Generate .hap file from VCF for haplohseq
  • Vcf-split - Split a multi-sample VCF into single-sample VCFs
  • Unikmer - Toolkit for nucleic acid k-mer analysis, set operations on k-mers
  • Unanimity - Pacific Biosciences consensus library and applications
  • Ugene - Integrated bioinformatics toolkit
  • Ucsc-userapps - Command line tools from the UCSC Genome Browser project
  • Trimmomatic - Flexible read trimming tool for Illumina NGS data