MMseqs2.0: ultra fast and sensitive protein search and clustering suite
...ets. MMseqs2 is open source GPL-licensed software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin) Windows. The software is designed to run on multiple cores and...2291 days ago
NGMLR: long-read mapper designed to align PacBio or Oxford Nanopore
...oNvex Gap-cost alignMents for Long Reads (ngmlr) is a long-read mapper designed to sensitively align PacBilo or Oxford Nanopore to (large) reference genomes. It was designed to quickly and correctly alig...2257 days ago
HISAT2: a fast and sensitive alignment program for mapping next-generation sequencing reads
...opulation of human genomes (as well as to a single reference genome). Based on an extension of BWT for graphs [Sirén et al. 2014], we designed and implemented a graph FM in...2244 days ago
CrossMap: a program for convenient conversion of genome coordinates
...Cv37) <> mm10 (GRCm38)). It supports most commonly used file formats including SAM/BAM, Wiggle/BigWig, BED, GFF/GTF, VCF. CrossMap is designed to liftover genome coordinate...2221 days ago
2221 days ago
D-GENIES: A tool for Dotplot large Genomes in an Interactive, Efficient and Simple way
D-GENIES – for Dotplot large Genomes in an Interactive, Efficient and Simple way – is an online tool designed to compare two genomes. It supports large genome and you can interact with...2210 days ago
2237 days ago
LAMSA: fast split read alignment with long approximate matches
...takes the advantage of the rareness of SVs to implement a specifically designed two-step strategy. That is, L...MSA is open source and free for non-commercial use. LAMSA is mainly designed by Bo Liu & Yan Gao and d...2237 days ago
HapCUT2: robust and accurate haplotype assembly for diverse sequencing technologies
...kelihood-based tool for assembling haplotypes from DNA sequence reads, designed to "just work" with excellent...low or inaccurate performance on others. With this in mind, HapCUT2 is designed for speed and accuracy across...2237 days ago
Hapsembler: An Assembler for Highly Polymorphic Genomes
Hapsembler is a haplotype-specific genome assembly toolkit that is designed for genomes that are rich in SNPs and other types of polymorphism. Hapsembler can be used to assemble reads from a variety of platforms including Illumina and Roche/454. http://compbio.cs.toronto.edu/hapsembler/2230 days ago