2032 days ago
regioneR: an R package for the management and comparison of genomic regions
Regioner is an R package for the management and comparison of genomic regions. It offers a set of function for basi...ion of a set of regions with other sets of regions, functions defined over the genome...2032 days ago
Genome sequence-based (sub-)species delineation.
The GGDC web service reports digital DDH for a universal and accurate delineation of prokaryotic (sub-)species w...ferences in genomic G+C content. http://ggdc.dsmz.de/ggdc_background.php# Genome-to-Genome...2031 days ago
genoPlotR - plot gene and genome maps project!
genoPlotR is a R package to produce reproducible, publication-grade graphics of gene and genome maps. It allows the user to read from usual format such as prot...tions to all the lines Create smart, automatic annotations for genomes...2031 days ago
OrthoANI: An improved algorithm and software for calculating average nucleotide identity
OAT uses OrthoANI to measure the overall similarity between two genome sequences. ANI and OrthoANI are comparable algorithms: they share the...Interface that allow researchers to calculate OrthoANI values between genomes...2031 days ago
KEGG Mapper – Reconstruct Pathway
Reconstruct Pathway is a KEGG PATHWAY mapping tool that assists genome and metagenome annotations. The input data is a single gene list (for a single organism) or multiple gene lists (for mu...2031 days ago
2031 days ago
Purge Haplotigs: Pipeline to help with curating heterozygous diploid genome assemblies
Some parts of a genome may have a very high degree of heterozygosity. This causes contigs for both haplotypes of that part of the genome...2027 days ago
ARCS: scaffolding genome drafts with linked reads
ARCS requires two input files: Draft assembly fasta file Interleaved linked reads file (Barcode sequence expected in the BX tag of the read header or in the form "@readname_barcode" ; Run Long Ranger basic on raw chromium reads to produce this interleaved file)2026 days ago
FGENESH - Program for predicting multiple genes in genomic DNA sequences
...fastest (50-100 times faster than GenScan) and most accurate gene finder available - see the figure and the table below. In recent rice genome sequencing projects, it was cited "the most succ...2023 days ago