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ena

Here are 14 public repositories matching this topic...

pysradb

saketkc / pysradb

Package for fetching metadata and downloading data from SRA/ENA/GEO

bioinformatics bioinformatics-pipeline ncbi-sra-archive sra ena sratoolkit ncbi-sra

Updated Mar 16, 2022
Python

nf-core / fetchngs

Pipeline to fetch metadata and raw FastQ files from public and private databases

workflow pipeline nextflow download geo fastq synapse sra ena nf-core ddbj

Updated Mar 17, 2022
Nextflow

NBISweden / EMBLmyGFF3

An efficient way to convert gff3 annotation files into EMBL format ready to submit.

converter gff3 submission embl ena

Updated Aug 23, 2021
Python

maximilianh / multiSub

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.

tsv genbank fasta ncbi meta-data ena sars-cov-2 sarscov2 gisaid-uploader gisaid-format gisaid-upload gisaid-xls ncbi-ftp

Updated Mar 2, 2022
Python

bebatut / enasearch

A Python library for interacting with ENA's API

api api-client ena

Updated Aug 10, 2021
Python

AmirHoseinSafari / Genotype-collector-and-SNP-dataset-creator

Collecting Genotypes from ENA and make their SNPs

isolate gatk snp genotype samtools bwa-mem tuberculosis ena fastq-files snp-calling

Updated Sep 27, 2021
Python

luispedro / ena-mirror

Mirror selected ENA data locally

python bioinformatics ena

Updated Oct 14, 2020
Python

hivlab / ena-upload

Snakemake workflow to upload Sars-Cov-2 reads to ENA

snakemake upload ena snakemake-workflow sars-cov-2 covid-19-estonia snakefile korogeno-est

Updated Apr 26, 2021
Python

robiwangriff / ENA-submission-in-R

R functions and workflow for submitting amplicon sequence data to the ENA.

r metagenomics samples submit illumina metabarcoding amplicon submission reads ebi ena fastq-files uploading-fastqs mixs-checklists

Updated May 26, 2021
R

aldinka / test

test

angular angular4 das asdas asd sd ena asdasd asdasdas aldin asdasdasda dasdasdasdasdkajsdlkjasd kajlsd asdjlkajsdlkajsdlkajsd sdddd sdkfjskdfjksdfjksdfj

Updated Oct 26, 2018

fabio-cumbo / dbss

Document Based Sequence Search

search mongodb nosql sequence jellyfish sra ena

Updated Jul 3, 2018
Python

abhi18av / ena-genomes-link-aggregator

python clojure browser-automation aria2c ena

Updated Aug 15, 2020
Python

annacprice / ena-fastq-fetch

Query the ENA for different types of data and bulk download

bioinformatics bulk-download ena

Updated Nov 7, 2019
Python

UofGMarkWong / TRANSGENE

Source codes of API queries in R (made available together with datasets) of Medical Translation in the History of Modern Genomics (TRANSGENE)

api r scopus network-analysis pmid ebi ena scopus-analysis epmc transgene

Updated Jul 22, 2019

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