2016 days ago
BLAST options, setting and defaults
BLAST stands for Basic Local Alignment Search Tool and was developed by Altschul et al...7). It is a very fast search algorithm that is used to separately search protein or DNA databases. BLAST is be...1981 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 protein table files and blast results...1979 days ago
1950 days ago
LTR_Finder: an efficient program for finding full-length LTR retrotranspsons in genome sequences.
LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in geno...entification includes a dynamic programming to process frame shift. For other protein domains, LTR_FINDER calls ps_...1947 days ago
SeqKit - a cross-platform and ultrafast toolkit for FASTA/Q file manipulation
FASTA and FASTQ are basic and ubiquitous formats for storing nucleotide and protein sequences. Common manipulations...1940 days ago
BUSCA: an integrative web server to predict subcellular localization of proteins
...t Annotator) is a web-server for predicting protein subcellular localization. BUSC...erent tools to predict localization-related protein features (DeepSig, TPpred3, P...bcellular localization of both globular and membrane proteins (BaCelLo, MemLoci and SChlor...1922 days ago
MACSE: Multiple Alignment of Coding SEquences Accounting for Frameshifts and Stop Codons
MACSE aligns coding NT sequences with respect to their AA translation while allowing N...ifts and/or stop codons. MACSE is hence the first automatic solution to align protein-coding gene datasets containi...1912 days ago
IQ-TREE: Efficient software for phylogenomic inference
A fast and effective stochastic algorithm to infer phylogenetic trees by maximum likel...are faster in 75.7% and 47.1% of the DNA alignments and 42.2% and 100% of the protein alignments, respectively. How...1912 days ago
multiPhATE: bioinformatics pipeline for functional annotation of phage isolates
multiple-genome Phage Annotation Toolkit and Evaluator (multiPhATE). multiPhATE is a t...age gene-calling algorithm and assigns putative functions to gene calls using protein-, virus-, and phage-centric d...1825 days ago