Pipeline to create phage genome synteny graphics from genbank files
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Oct 28, 2024 - Python
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blastn
Here are 21 public repositories matching this topic...
A Fully Automatic Method for Predicting Contact Maps of RNAs by Evolutionary Coupling Analysis
gremlin evolutionary-couplings msa blastn rnafold infernal spot-rna canonical-base-pairs pseudoknot-base-pairs direct-coupling-analysis rna-seconday-structure plmc mf-dca end-to-end-pipeline non-canonical-base-pairs tertiary-interactions rna-contact-prediction
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Nov 6, 2023 - Python
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.
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Oct 28, 2025 - Python
A program used to find indels on target gene edited by CRISPR/Cas9
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Apr 18, 2017 - Python
Parser of BLAST results
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Aug 5, 2023 - Python
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…
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May 7, 2021 - Python
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.
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Jul 30, 2024 - Python
Python pipeline for automated synteny block detection and visualization from multiple genomes.
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Nov 21, 2025 - Python
Automações para realizar alinhamentos em grande escala com o Blast
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Dec 25, 2024 - Python
DNA barcoding analysis pipeline
bioinformatics genomics dna phylogenetics genbank fasta dna-sequences phylogeny bioinformatics-analysis blastn sanger-chromatograms ab1 dna-barcode dna-barcoding species-identification dna-alignment genbank-files mega11
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Jul 20, 2023 - Python
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.
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Jun 2, 2025 - Python
MCP Server and Gradio app for performing NCBI Blast on a DNA sequence
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Jun 23, 2025 - Python
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Nov 15, 2024 - Python
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.
genetic-algorithm resistance microbial-genomics microbiology blastn antibiotic-resistance random-forest-classifier
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Dec 24, 2024 - Python
A pipeline developed for the analysis of chromosome position of target protein sequences.
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Dec 30, 2025 - Python
A bioinformatics-driven assessment of Genetically Modified Organism (GMO) status in maize and soyabeans
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Sep 6, 2025 - Python
BLAST searches in parallel using GNU Parallel
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Jul 23, 2024 - Python
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