Pipeline to create phage genome synteny graphics from genbank files

A Fully Automatic Method for Predicting Contact Maps of RNAs by Evolutionary Coupling Analysis

Mining NCBI BLAST output

PhylUp - a python package to automatically generate alignments (or update alignments and phylogenies) using local sequences or a local Genbank database while controlling for the number of sequences per OTU.

A program used to find indels on target gene edited by CRISPR/Cas9

omicR for R studio creates fasta files, downloads genomes from NCBI using the refseq number, creates databases to run BLAST+, runs BLAST+ and filters these results to obtain the best match per sequence. These scripts can be used to run BLAST alignment of short-read (DArTseq data) and long-read sequences (Illumina, PacBio… etc). You can use refer…

omicR It creates fasta files, downloads genomes from NCBI using the refseq number, creates databases to run BLAST+, runs BLAST+ and filters these results to obtain the best match per sequence. These scripts can be used to run BLAST alignment of short-read (DArTseq data). It only works with BLAST V 2.7 or under.

Automações para realizar alinhamentos em grande escala com o Blast

DNA barcoding analysis pipeline

Parser of BLAST results

ResTransfer is a bioinformatics pipeline that predicts horizontal gene transfer (HGT) of resistance genes in microbes using BLAST and scoring, providing categorized insights into antibiotic resistance transfer likelihood.

MIP_ORACLE: Identifies unique target regions with diagnostic significance in pathogens.

various tools that help with deep sequencing analysis

BLAST searches in parallel using GNU Parallel

Map SNP positions to a supplied reference assembly using BLAST. Filter results for best hit. Output in plink format.