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OpenHero /gblastn

G-BLASTN is a GPU-accelerated nucleotide alignment tool based on the widely used NCBI-BLAST.

bioinformatics gpu high-performance cuda nvidia dna high-performance-computing dna-sequences ncbi-blast blastn dna-alignment

UpdatedOct 20, 2022
C++

drostlab /metablastr

Seamless Integration of BLAST Sequence Searches in R

protein species blast blast-searches nucleotide biological-sequences blasting blastn blast-search sequence-diversity biomartr blast-hits

UpdatedSep 10, 2023
R

ropensci /phylotaR

An automated pipeline for retrieving orthologous DNA sequences from GenBank in R

r phylogenetics genbank rstats r-package sequence-alignment blastn peer-reviewed

UpdatedJul 19, 2024
R

laurentnoe /yass

genomic alignment similarity search tool

fasta sequence-alignments align-dna-sequences dna-sequences sequence-alignment fasta-sequences blastn genomic-data-analysis blast-search spaced-seed

UpdatedMay 29, 2024
C

Azure /azure-hpc

Microsoft Azure HPC & Big Compute

bioinformatics research blast azure-storage blast-searches lifescience blastn blast-search azure-hpc

UpdatedAug 18, 2019
JavaScript

vestalisvirginis /synphage

Pipeline to create phage genome synteny graphics from genbank files

unit-testing python3 synteny blastn

UpdatedOct 28, 2024
Python

tao-bioinfo /PrimerServer

Obsolete!! Begin to turn to PrimerServer2

html5 specificity thermodynamics d3js blastn primer-design

UpdatedJul 22, 2019
Perl

jaswindersingh2 /RNAcmap

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

UpdatedNov 6, 2023
Python

NuruddinKhoiry /blastMining

Mining NCBI BLAST output

blast lca ncbi-blast blastn

UpdatedDec 14, 2022
Python

Reconfigurable-Computing-CalPoly-Pomona /Reconfigurable-BLAST-N

The Blastn (Basic Local Alignment Search Tool for Nucleotides) algorithm with Smith-Waterman scoring implemented for FPGAs

python bioinformatics fpga cplusplus vhdl verilog vivado blastn

UpdatedDec 10, 2019
C

mkandziora /PhylUp

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.

alignment blastn taxon phylogenies

UpdatedJul 14, 2022
Python

brianSalk /blast_practice_data

data used in the youtube video

bioinformatics sequencing alignment blastn

UpdatedJul 20, 2024

asadprodhan /A-beginner-s-guide-to-Bioinformatics

A beginner’s guide to Bioinformatics

bash bioinformatics conda bioconda bedtools blastn conda-environment

UpdatedMar 2, 2023

TuanjieNew /Indel-Finder

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

crispr-analysis crispr-cas9 indel-finder blastn

UpdatedApr 18, 2017
Python

BTalamantesBecerra /omicR_for_RStudio

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…

fasta blast fasta-sequences blastn dartseq

UpdatedMay 7, 2021
Python

pranavkhurana /Seabuck-thorn

This is a simple implementation of NCBI's BLAST(Basic Local Alignment Search Tool) url API in PHP. Blast finds regions of similarity between biological sequences.

php blast-searches ncbi-blast blastn blast-url-api seabuck-thorn

UpdatedJul 12, 2017
PHP

BTalamantesBecerra /omicR

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.

fasta blast fasta-sequences blastn fasta-format dartseq blast-filter

UpdatedJul 30, 2024
Python

JacobLondon /Blastn

The Blastn (Basic Local Alignment Search Tool for Nucleotides) algorithm with Smith-Waterman scoring implemented for FPGAs

python bioinformatics school fpga cplusplus vhdl verilog vivado blastn

UpdatedDec 5, 2019
C

iruziky /Alinhamento-com-Blast

Automações para realizar alinhamentos em grande escala com o Blast

python bioinformatics r blastn

UpdatedDec 25, 2024
Python

mdcjansen /DBA

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

UpdatedJul 20, 2023
Python

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