There are 1 repository under genbank topic.
Scripts to download genomes from the NCBI FTP servers
:eye: Python library to plot DNA sequence features (e.g. from Genbank files)
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.
Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy
GET_HOMOLOGUES: a versatile software package for pan-genome analysis
Cenote-Taker2: Discover and Annotate Divergent Viral Contigs (Please use Cenote-Taker 3 instead)
Nextstrain build for mpox virus
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.
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.
F# library for accessing and manipulating bioinformatic datasets.
đź‘“ Python library to parse Snapgene *.dna files to dict or biopython seqrecord.
A Python package for Biopython that gives feature annotations from GenBank records a new and better life
DEPRECATED: Use Cenote-Taker 3 instead
Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.
The most awful genbank file you'll ever need to parse.
Parse sequence files (GenBank, FASTA, SnapGene, SBOL) and accession IDs (NCBI, iGEM) to a common format
LAVA: Longitudinal Analysis of Viral Alleles
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.
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