CBS Comparative Microbial Genomics group - BioTools download page
he CMG-biotools system presents a stand-alone interface for comparative microbial ge...nera. The analyses include 16S rRNA phylogeny, basic DNA and codon statistics, proteome comparisons using BLAST and graphical analyses of DNA...2109 days ago
2059 days ago
RopeBWT2: Incremental construction of FM-index for DNA sequences
RopeBWT2 is an tool for constructing the FM-index for a collection of DNA sequences. It works by incrementally inserting one or multiple sequences into an existing pseudo-BWT position by...2046 days ago
BLAST options, setting and defaults
BLAST stands for Basic Local Alignment Search Tool and was developed by Altschul et al. (1990) and significantly...It is a very fast search algorithm that is used to separately search protein or DNA...2000 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 o...the functionality of GenomicRanges and a powerful and customizable permutation test framework. With it, it's poss...1999 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 t...e-made tabular files. Features Linear representation of several segments of DNA...1998 days ago
FGENESH - Program for predicting multiple genes in genomic DNA sequences
FGENESH is the 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 project...1990 days ago
GeneOverlap: An R package to test and visualize gene overlaps
Overlapping gene lists can reveal biological meanings and may lead to novel hypotheses. For example, histone modification is an important cellular mechanism that can p...1982 days ago
UPhO: Scripts for homology and orthology assessment from genomic sequences.
UPhO finds orthologs with and without inparalogs from input gene family tree...character "|" but custom delimiters can be defined. Examples of trees to test UPhO are provided in the TestData folder.1965 days ago
IQ-TREE: Efficient software for phylogenomic inference
A fast and effective stochastic algorithm to infer phylogenetic trees by maximum likelihood. IQ-TREE compare...the IQ-TREE stopping rule, RAxML and PhyML are faster in 75.7% and 47.1% of the DNA...1930 days ago