view test-data/sra_manifest.tabular @ 33:6591f049cf7e draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/sra-tools commit 09541df3d3341a9ca442161117fa0e577d0d0bd5
author iuc
date Wed, 25 Oct 2023 20:02:46 +0000
parents 248f85ff0733
children
line wrap: on
line source

Run	Assay Type	BioProject	BioSample	Center Name	Consent	DATASTORE filetype	DATASTORE provider	DATASTORE region	Experiment	Instrument	LibraryLayout	LibrarySelection	LibrarySource	Organism	Platform	Sample Name	SRA Study	Bytes	ReleaseDate	Library Name	Collection_Date	isolate	AvgSpotLen	Bases	BioSampleModel	Host	geo_loc_name_country	geo_loc_name_country_continent	geo_loc_name	host_disease	collected_by	isolation_source	lat_lon	host_sex	passage_history	strain	host_age	host_subject_id	ENA-FIRST-PUBLIC (run)	ENA-FIRST-PUBLIC	ENA-LAST-UPDATE (run)	ENA-LAST-UPDATE	geographic_location_(country_and/or_sea)	host_health_state	collecting_institution	collector_name	geographic_location_(region_and_locality)	host_common_name	host_scientific_name	gisaid_id	isolation_source_host-associated	sample_capture_status	isolate (run)	ARTIC_barcode_identifiers	host_tissue_sampled	library_id	AssemblyName	GEO_Accession (exp)	source_name	tissue	barcode_identifiers	Cell_type	host_description	sample_type	age_event	Age	Biomaterial_provider	cell_number	cell_processing_protocol	cell_quality	disease	disease_stage	ETHNICITY	health_state	sex	single_cell	synthetic	tissue_processing	cell_subsets	patient_group	disease_state	subject_status	tissue/cell_type	sample_origin	organ	host_disease_stage	stock_production_date	culture_collection	COUNTRY	Extraction-method	host_disease_outcome	identification_method	Laboratory_Host	link_addit_analys	ref_biomaterial	datatype (run)
SRR11953971	RNA-Seq	PRJNA622837	SAMN14938999	BROAD INSTITUTE OF HARVARD AND MIT	public	bam,sra	gs,ncbi,s3	gs.US,ncbi.public,s3.us-east-1	SRX8498148	Illumina NovaSeq 6000	PAIRED	cDNA	VIRAL RNA	Severe acute respiratory syndrome coronavirus 2	ILLUMINA	MA_MGH_00524	SRP266465	207470	2020-06-08T00:00:00Z	SAMN14938999_ERCC-00040_RandomHexamer_NexteraXT	2020-03-17	not applicable	202	415514	Pathogen.cl	Homo sapiens	USA	North America	USA: Massachusetts	COVID-19	Massachusetts General Hospital	nasopharyngeal swab	missing		not applicable	not applicable		MA_MGH_00524