GitHub topics: refseq
PopovIILab/BatShotMetaFlow
🦇🧫📊Study on bat gut shotgun metagenomics
Language: Jupyter Notebook - Size: 9.77 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 1 - Forks: 1
oschwengers/referenceseeker
Rapid determination of appropriate reference genomes.
Language: Python - Size: 19.7 MB - Last synced at: 10 days ago - Pushed at: 5 months ago - Stars: 97 - Forks: 6
JensUweUlrich/Taxor
Fast and space-efficient taxonomic classification of long reads
Language: C++ - Size: 716 KB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 43 - Forks: 2
muellan/metacache
memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
Language: C++ - Size: 149 MB - Last synced at: about 1 month ago - Pushed at: 3 months ago - Stars: 60 - Forks: 13
pirovc/genome_updater
Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy
Language: Shell - Size: 1.29 MB - Last synced at: 3 months ago - Pushed at: 6 months ago - Stars: 154 - Forks: 15
pirovc/ganon
ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), taxonomic profiling (ncbi/gtdb), binning and hierarchical classification, customized reporting and more
Language: Python - Size: 24.2 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 96 - Forks: 12
karubiotools/getSequenceInfo Fork of dcouvin/getSequenceInfo
Perl and Python scripts allowing to get sequence information from GenBank, RefSeq or ENA sequence repositories
Language: Perl - Size: 14.7 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 12 - Forks: 4
fsprojects/BioProviders
F# library for accessing and manipulating bioinformatic datasets.
Language: F# - Size: 251 MB - Last synced at: 19 days ago - Pushed at: over 1 year ago - Stars: 24 - Forks: 0
g-insana/ortho2tree
Pipeline for the selection of canonical proteins for reference proteomes
Language: Python - Size: 18.1 MB - Last synced at: 3 months ago - Pushed at: 7 months ago - Stars: 2 - Forks: 0
RicoLeiser/EZNCBIdownloader
Python-based tool to easily bulk download bacteria genomes from NCBI
Language: Python - Size: 54.7 KB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 0 - Forks: 0
mr-eyes/orthodb-refseq-mapper
Mapping RefSeq RNA to OrthoDB (Under Development)
Language: Python - Size: 1.99 MB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 1 - Forks: 0
brinkmanlab/MicrobeDB
Curated mirror of RefSeq Microbial Genomes. Available via CVMFS repository.
Language: Shell - Size: 71.3 KB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 1 - Forks: 0
dfguan/deSPI
fast classification of metagenomic sequences with lightweight de Bruijin graph-based reference indexing
Language: C++ - Size: 3.02 MB - Last synced at: almost 2 years ago - Pushed at: over 2 years ago - Stars: 10 - Forks: 5
JacobHanimann/IsoAligner
IsoAligner: dynamic mapping of amino acid positions across protein isoforms
Language: Python - Size: 215 MB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 3 - Forks: 2
hunglin59638/makura
NCBI Genome downloader
Language: Python - Size: 143 KB - Last synced at: 10 days ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0
GENCARDIO/build_gene_transcript_db
Get the latest gene-transcript identifiers using Ensembl, RefSeq, MANE and LRGs models.
Language: Python - Size: 76.7 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
asadprodhan/Downloading_genomes_from_RefSeq
Downloading Genomes from RefSeq
Language: Shell - Size: 48.8 KB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0
ClementLancien/convertToEntrezGeneID
Download biological databas, extract database identifier and entrez gene identifier, insert in a mongo database
Language: Python - Size: 22.7 MB - Last synced at: about 1 year ago - Pushed at: almost 8 years ago - Stars: 3 - Forks: 3
mtp-usz/IsoAligner Fork of JacobHanimann/IsoAligner
IsoAligner: dynamic mapping of amino acid positions across protein isoforms
Language: Python - Size: 215 MB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 1 - Forks: 0
akarazeev/LauzHack19
🇨🇭🦠 Service for pathogens and threats identification in hospital environments - SOPHiA Genetics
Language: Jupyter Notebook - Size: 187 MB - Last synced at: about 1 year ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0
bielasilva/mock_ncbi_download
Randomly download genomes from NCBI RefSeq and Genbank
Language: Python - Size: 7.81 KB - Last synced at: about 2 years ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0
forestdussault/download_refseq
:arrow_down: Facilitates downloading NCBI's RefSeq with a human-readable file structure
Language: Python - Size: 10.7 KB - Last synced at: over 2 years ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 0
