13 results found Sort:

kblin
ncbi-genome-download kblin
173
967
apache-2.0
35
Scripts to download genomes from the NCBI FTP servers
ncbi python biology genbank genomics command-line bioinformatics download-genomes
Created 2016-05-03
303 commits to master branch, last one 4 months ago
bebop
poly bebop
73
676
mit
13
A Go package for engineering organisms.
go dna mash fasta synbio genbank plasmids alignment dna-barcode golden-gate dna-barcoding primer-design bioengineering bioinformatics codon-optimizer sequence-hashing molecular-biology synthetic-biology genetic-engineering computational-biology
Created 2020-05-29
491 commits to main branch, last one 2 months ago
Edinburgh-Genome-Foundry
DnaFeaturesViewer Edinburgh-Genome-Foundry
93
607
mit
19
:eye: Python library to plot DNA sequence features (e.g. from Genbank files)
genbank visualization bioinformatics dna-visualization molecular-biology synthetic-biology
Created 2016-09-20
183 commits to master branch, last one about a year ago
moshi4
pyGenomeViz moshi4
23
296
mit
3
A genome visualization python package for comparative genomics
gff gff3 python genbank synteny genomics matplotlib microbiology visualization bioinformatics microbial-genomics comparative-genomics genomics-visualization
Created 2022-05-20
438 commits to main branch, last one 24 hours ago
pydna-group
pydna pydna-group
46
168
other
14
Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.
dna gel fasta pydna python biology genbank jupyter anaconda biopython simulation bioinformatics gel-simulation gibson-assembly jupyter-notebook jupyter-notebooks cloning-strategies assembly-strategies gel-electrophoresis
Created 2015-02-04
1,739 commits to master branch, last one about a month ago
pirovc
genome_updater pirovc
15
146
mit
1
Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy
bash ncbi genome refseq genbank genomes database download genomics sequence bioinformatics
Created 2017-05-11
170 commits to main branch, last one 6 days ago
eead-csic-compbio
get_homologues eead-csic-compbio
26
110
other
17
GET_HOMOLOGUES: a versatile software package for pan-genome analysis
fasta plants genbank pangene bacteria pangenome annotation clustering transcriptome
Created 2015-11-26
592 commits to master branch, last one about a month ago
pirovc
ganon pirovc
13
92
mit
4
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 hierar...
gtdb ncbi k-mer refseq genbank taxonomy microbiome minimizers bloom-filter metagenomics bioinformatics
Created 2018-08-30
690 commits to master branch, last one 10 months ago
mtisza1
Cenote-Taker2 mtisza1
7
55
mit
2
Cenote-Taker2: Discover and Annotate Divergent Viral Contigs (Please use Cenote-Taker 3 instead)
virus virome genbank hhblits hallmark hhsearch prophage discovery annotation metagenomes cenote-taker2 virus-discovery virus-evolution virus-sequences prophage-prediction cenote-unlimited-breadsticks
Created 2019-09-12
337 commits to master branch, last one 11 months ago
rcs333
VAPiD rcs333
15
51
mit
4
VAPiD: Viral Annotation and Identification Pipeline
ngs ncbi fasta virus biology genbank metadata virology annotations bioinformatics
Created 2016-12-15
355 commits to master branch, last one 3 years ago
nextstrain
mpox nextstrain
19
45
mit
18
Nextstrain build for mpox virus
mpox augur auspice genbank metadata pathogen pipeline monkeypox nextstrain phylogenetics bioinformatics virus-evolution genomic-epidemiology
Created 2022-05-19
913 commits to master branch, last one 16 days ago
maximilianh
multiSub maximilianh
2
35
gpl-3.0
4
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...
ena tsv ncbi fasta genbank ncbi-ftp sarscov2 meta-data gisaid-xls sars-cov-2 gisaid-format gisaid-upload gisaid-uploader
Created 2021-04-02
74 commits to stable branch, last one 2 years ago
Koeng101
dnadesign Koeng101
1
30
other
4
A Go package for designing DNA.
go sam fasta fastq pileup synbio genbank plasmids goldengate codon-usage dna-barcode dna-folding rna-folding bioinformatics molecular-biology synthetic-biology codon-optimization genetic-engineering computational-biology
Created 2023-12-07
552 commits to main branch, last one 7 days ago