Alien_Hunter : prediction of putative Horizontal Gene Transfer (HGT) events
...Model (HMM), in a change-point detection framework, to optimize the localization of the boundaries of the predicted regions. The predictions (embl format) can be automatically loaded...2303 days ago
2285 days ago
Generate interactive codon usage plots
Generate interactive codon usage plots as used at ensembl.lepbase.org. The input file format can be generated from an Ensembl database using the export_json.pl script from the easy-import pipeline. live demo2252 days ago
2168 days ago
pbalign: maps PacBio reads to reference sequences and saves alignments to a BAM file
...e sequences, filters aligned reads according to user-specific filtering criteria, and converts the output to either the SAM format or PacBio Compare HDF5 (e.g., .cmp.h5) format. The output Compare HDF5 file...2167 days ago
CGView - Circular Genome Viewer
...as a means of generating visual output suitable for the web. Feature information and rendering options are...s the input into a graphical map (PNG, JPG, or Scalable Vector Graphics format), complete with labels, a tit...2140 days ago
2127 days ago
2093 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.2092 days ago
NextSV: a meta-caller for structural variants from low-coverage long-read sequencing data
...ers and generates two integrated call sets (sensitive/stringent) for different analysis purpose. The output of NextSV is in ANNOVAR-compatible bed format. Users can easily perform dow...2092 days ago