NGMLR: long-read mapper designed to align PacBio or Oxford Nanopore
CoNvex Gap-cost alignMents for Long Reads (ngmlr) is a long-re...tructural variations. Ngmlr uses an SV aware k-mer search to find approximate mapping l...nts stemming from structural variations. The k-mer search helps to detect and split rea...2251 days ago
2215 days ago
BEAP: Blast Extension and Assembly Program
The Blast Extension and Assembly Program (BEAP) is a computer program that uses a short starting DNA fragment, often a EST or partial gene segment, as "primer", to recurs...2204 days ago
gSearch: a fast and flexible general search tool for whole-genome sequencing
gSearch compares sequence variants in the Genome Variation Format (GVF) or Variant Call Format (VCF) with a pre-compiled annotation or with variants in other genomes. Its search algorithms are subsequently optimized and implemented in a multi-threaded manner.2147 days ago
lordFAST: sensitive and Fast Alignment Search Tool for LOng noisy Read sequencing Data
lordFAST is a sensitive tool for mapping long reads with high error rates. lordFAST is specially designed for aligning reads from PacBio sequencing technology but provi...2035 days ago
RepeatMasker compatible blast tool
RMBlast is a RepeatMasker compatible version of the standard N...and RepeatModeler. RMBlast supports RepeatMasker searches by adding a few necessary f...Cross_match is Phil Green's seeded smith-waterman search algorithm. Support for cross...2025 days ago
BLAST options, setting and defaults
BLAST stands for Basic Local Alignment Search Tool and was developed by Altsch.... (1997). It is a very fast search algorithm that is used to sep...est used for sequence similarity searching, rather than for motif sea...AST, and may be useful for motif searching, is FASTA. To search...2022 days ago
Quick tour of Genetic Algorithms !
The R package GA provides a collection of general purpose functions for optimiz...package includes a flexible set of tools for implementing genetic algorithms search in both the continuous and di...1984 days ago
1980 days ago
The Extensive de novo TE Annotator (EDTA)
The EDTA package was designed to filter out false discoveries in raw TE candidates and ge...on-redundant TE library for whole-genome TE annotations. Selection of initial search programs were based on benckm...1781 days ago