blastn

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…

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

Parser of BLAST results

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.

Python pipeline for automated synteny block detection and visualization from multiple genomes.

Automações para realizar alinhamentos em grande escala com o Blast

Focused WSL-backed BLAST, BLAST-OR, and database GUI for Windows

Fork of PlutoF/Massblaster with ressources load scaler, SLURM implementation, pipeline monitoring and output formating. Results are in JSON, CSV files and HTML.

DNA barcoding analysis pipeline

On étudie dans ce projet les éléments transposables de l’Arabidopsis thaliana. L’objectif de ce projet est de concevoir une base de données regroupant l’ensemble des copies, ainsi que les copies de référence, de six familles d’éléments transposables issues du génome TAIR10 de l’Arabidopsis thaliana, sélectionnées par nos soins.

A Python tool for screening primer pairs against genome BLAST results, reporting viable amplicons, failed hits, GFF3 annotations, and genome-wide PDF plots.

MCP Server and Gradio app for performing NCBI Blast on a DNA sequence

A pipeline developed for the analysis of chromosome position of target protein sequences.

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