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Ncbi Genome Download ⭐ 784

Scripts to download genomes from the NCBI FTP servers

A Go package for engineering organisms.

Dnafeaturesviewer ⭐ 500

👁️ Python library to plot DNA sequence features (e.g. from Genbank files)

Pygenomeviz ⭐ 177

A genome visualization python package for comparative genomics

Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.

Genome_updater ⭐ 123

Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy

Get_homologues ⭐ 98

GET_HOMOLOGUES: a versatile software package for pan-genome analysis

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

Cenote Taker2 ⭐ 57

Cenote-Taker2: Discover and Annotate Divergent Viral Contigs (Please use Cenote-Taker 3 instead)

Nextstrain build for mpox virus

Ncov Ingest ⭐ 34

A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV rebuilds.

Multisub ⭐ 28

Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input directory and merges everything into a single output directory. Auto-detects input file formats. Can submit the results to multiple repositories from the command line.

VAPiD: Viral Annotation and Identification Pipeline

Seqsender ⭐ 24

Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories

😴 📂 Create and Query a Local Copy of GenBank in R

Phylotar ⭐ 24

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

Bioproviders ⭐ 21

F# library for accessing and manipulating bioinformatic datasets.

An example GenBank file reader in Rust

Barcodefinder ⭐ 20

all-in-one solution for discovering novel DNA barcode

Go REST API to replace Genbank, Uniprot, Rhea, and CHEMBL

Cenote Taker ⭐ 14

DEPRECATED: Use Cenote-Taker 3 instead

Goodbye Genbank ⭐ 12

A Python package for Biopython that gives feature annotations from GenBank records a new and better life

Genomicannotations.jl ⭐ 11

Snapgenereader ⭐ 11

👓 Python library to parse Snapgene *.dna files to dict or biopython seqrecord.

Cazy_webscraper ⭐ 10

Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.

Tostadas ⭐ 10

🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission

Worst Genbank Ever ⭐ 9

The most awful genbank file you'll ever need to parse.

GenBank Record downloader for taxonomists

Easy-to-use web application for visualization and comparison of genomes in Genbank file

A Rust library for parsing, writing and manipulating Genbank sequence files

LAVA: Longitudinal Analysis of Viral Alleles

Coi_ncbi_2018 ⭐ 5

This repository contains the scripts used to retrieve and analyze the data reported in Porter & Hajibabaei 2018 bioRxiv doi: https://doi.org/10.1101/353904

Genbankpy ⭐ 5

Tools to download, parse and filter GenBank files

MetaShot (Metagenomics Shotgun) is a complete pipeline designed for the taxonomic classification of the human microbiota members. In MetaShot, third party tools and new developed Python and Bash scripts are integrated to analyze paired-end (PE) Illumina sequences, offering an automated procedure covering all the analysis steps from raw data management to taxonomic profiling. It is designed to analyze both DNA-Seq and RNA-Seq data.

Related Searches

Bioinformatics Genbank (19)

Python Genbank (15)

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