Apollo: A Sequencing-Technology-Independent, Scalable, and Accurate Assembly Polishing Algorithm
Apollo is an assembly polishing algorithm that attempts to correct the errors in an assembly. It can take multiple set of reads in a single run and polish the assemblies of genomes...1562 days ago
Synteny and Rearrangement Identifier (SyRI)
...emblies are aligned using whole-genome alignment tools, and these alignments are then used as input to SyRI. SyRI identifies syntenic path (longest set of co-linear regions), struct...1512 days ago
HS3D: Homo Sapiens Splice Sites Dataset
HS3D (Homo Sapiens Splice Sites Dataset) is a data set of Homo Sapiens Exon, Intron and Splice...ed from GenBank Rel.123. The aim of this data set is to give standardized mater...1. P.Pollastro, S.Rampone (2002). HS3D, a Dataset of Homo Sapiens Splice Region...1474 days ago
Filtlong: quality filtering tool for long reads
Filtlong is a tool for filtering long reads by quality. It can take a set of long reads and produce a smaller, better subset. It uses both read length (longer is better) and read identity (higher is better)...1504 days ago
merqury: Evaluate genome assemblies with k-mers
...available for the assembled individual. The k-mer spectrum of this read set can be used for independently...quality without the need of a high quality reference. Merqury provides a set of tools for this purpose. M...1453 days ago
1448 days ago
PyParanoid: a pipeline for rapid identification of homologous gene families in a set of genomes
...is a pipeline for rapid identification of homologous gene families in a set of genomes - a central task o...data means that comparative genomics analyses could be performed on datasets of thousands of strains....1412 days ago
1401 days ago
Caretta – A multiple protein structure alignment and feature extraction suite
...-the-art tools. Caretta is available as a GUI and command-line application and additionally outputs an aligned structure feature matrix for a given set of input structures, which ca...1286 days ago
JumboDB: tool for de Bruijn graph construction
...m long sequences (reads or genomes) with very low error rate. JumboDB is not a genome assembler by itself but rather a subroutine that translates a set of reads into compressed de B...1043 days ago