Qualimap is a platform-independent application written in Java and R that provides both a Graphical User Inteface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data.
Ingenuity Variant Analysis is a web application that helps researchers studying human disease to identify causal variants from human resequencing data in just minutes. Ingenuity Variant Analysis combines analytical tools and integrated content to help you rapidly identify and prioritize...
RobiNA is a Java GUI that enables the user to graphically call differentially expressed genes. For read mapping it relies on bowtie and for the differntial expression analysis it builds on an R backbone running DESeq and edgeR.
...it's BLAST.
Sequence database searching package available in several versions. The new BLAST+ package uses separate names blastp, blastn etc. The previous NBCI names blastall, blastpgp, bl2seq etc are still available alongside. Wu-BLAST is also available. The data are in /data4/bl...
Bison allows users with access to a computer cluster to rapidly align whole-genome bisulfite sequencing or RRBS reads. It can align both directional and non-directional libraries and uses bowtie2.
标签：Epigenomics, Bisulfite Sequencing, DNA methylation
"FHiTINGS is designed for use in rapidly identifying, classifying, and parsing internal transcribed spacer (ITS) DNA sequences after a BLASTn search. This software is useful for fungal ecology studies using next generation sequencing (NGS)."
Software to align short reads produced by a short read genome sequencer to a reference genome. Alignments can contain any number of SNPs, insertions and deletions, up to a user specified cutoff. Myrialign can use a Cell Broadband Engine processor to accelerate alignments if available, f...
" Tools to generate automatically high quality sequence by ordering contigs, closing gaps, correcting sequence errors and transferring annotation. With the advent of next generation sequencing a lot of effort was put into developing software for mapping or aligning short reads and perfo...