MMseqs2.0: ultra fast and sensitive protein search and clustering suite
MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein sequence sets....ame sensitivity. It can perform profile searches with the same sensitivity a...eqs2 enables sensitive protein sequence searching for the analysis of massiv...2280 days ago
2265 days ago
AlignGraph: algorithm for secondary de novo genome assembly guided by closely related references
AlignGraph is a software that extends and joins contigs or scaffolds by reassembling them with help provided by a reference genome of a closely related organism. Using...2254 days ago
2252 days ago
NGMLR: long-read mapper designed to align PacBio or Oxford Nanopore
CoNvex Gap-cost alignMents for Long Reads (ngmlr) is a l...structural variations. Ngmlr uses an SV aware k-mer search to find approximate mapping l...ints stemming from structural variations. The k-mer search helps to detect and split rea...2246 days ago
SEX-DETector: A Probabilistic Approach to Study Sex Chromosomes in Non-Model Organisms
SEX-DETector is a probabilistic method that relies on RNAseq data from a cross (parents and progeny of each sex) t...nbsp;for the assembly. Trinity components should be merged with cap3. Our code t...2211 days ago
2210 days ago
“One code to find them all”: a perl tool to conveniently parse RepeatMasker output files
One code to find them all is a set of perl scripts to extract useful information from RepeatMasker about transposa...th only a user-chosen set of TE families http://doua.prabi.fr/software/one-code-t...2206 days ago
LACHESIS: Genome Assembly with Hi-C-based Contact Probability Maps (LACHESIS)
LACHESIS is method that exploits contact probability map data (e.g. from Hi-C) for chromosome-scale de novo genome assembly. Further information about LACHESIS, including source code,...2227 days ago
fragScaff: Genome Assembly with Contiguity Preserving Transposition
...o cloning steps. Further information about fragScaff, including source code, is available at:https://sour...n for de novo genome assembly via transposase contiguity. Genome Research 2014 Dec;24(12):2041-9. doi:&...2227 days ago