Ecosyste.ms: Repos

An open API service providing repository metadata for many open source software ecosystems.

GitHub topics: ena

Repositories

saketkc/pysradb

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

Language: Python - Size: 7.01 MB - Last synced: 6 days ago - Pushed: 9 months ago - Stars: 297 - Forks: 49

tbcgit/omdctk

OMD Curation Toolkit is a python package designed for the download and curation of metadata and fastq files of public omics datasets.

Language: Python - Size: 7.73 MB - Last synced: 24 days ago - Pushed: 24 days ago - Stars: 2 - Forks: 0

nf-core/fetchngs

Pipeline to fetch metadata and raw FastQ files from public databases

Language: Nextflow - Size: 3.82 MB - Last synced: 13 days ago - Pushed: 13 days ago - Stars: 125 - Forks: 65

robiwangriff/ENA-submission-in-R

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

Language: R - Size: 246 KB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 1 - Forks: 1

ELIXIR-Belgium/ENA-metadata-templates

TSV and XLSX templates for submitting ENA objects (study, experiment, sample and run) using the ENA-upload-tool

Language: Python - Size: 5.58 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 3 - Forks: 3

bebatut/enasearch

A Python library for interacting with ENA's API

Language: Python - Size: 1.63 MB - Last synced: 13 days ago - Pushed: almost 3 years ago - Stars: 21 - Forks: 5

wucc009/Platelet_transcriptome_fastq_data_processing

血小板转录组fastq数据处理

Language: Shell - Size: 22.5 KB - Last synced: 4 months ago - Pushed: about 1 year ago - Stars: 2 - Forks: 0

NBISweden/EMBLmyGFF3

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

Language: Python - Size: 30.7 MB - Last synced: 8 months ago - Pushed: 9 months ago - Stars: 57 - Forks: 14

ljchueca/ENA_submission_reads

Language: Shell - Size: 12.7 KB - Last synced: 12 months ago - Pushed: 12 months ago - Stars: 2 - Forks: 0

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.

Language: Python - Size: 1020 KB - Last synced: about 2 months ago - Pushed: about 2 years ago - Stars: 34 - Forks: 2