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135 lines (135 loc) · 7.05 KB
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HANDADD assay.core.id
RENAME assay.ena_experiment assay.seq.ena_experiment
RENAME assay.ena_run assay.seq.ena_run
MODIFY assay.files assay.seq.lane_REFORMAT_NEEDED
RENAME assay.rna.prep assay.rna.library_construction
KEEP assay.rna.primer assay.rna.primer
KEEP assay.rna.spike_in assay.rna.spike_in
KEEP assay.rna.spike_in_dilution assay.rna.spike_in_dilution
KEEP assay.rna.strand assay.rna.strand
HANDADD assay.rna.end_bias
RENAME assay.seq.machine assay.seq.instrument_model
HANDADD assay.instrument_platform
KEEP assay.seq.molecule assay.seq.molecule
KEEP assay.seq.paired_ends assay.seq.paired_ends
RENAME assay.seq.prep assay.seq.library_construction
KEEP assay.seq.umi_barcode_offset assay.seq.umi_barcode_offset
KEEP assay.seq.umi_barcode_read assay.seq.umi_barcode_read
KEEP assay.seq.umi_barcode_size assay.seq.umi_barcode_size
RENAME assay.single_cell.cell_barcode_offset assay.single_cell.barcode_offset
RENAME assay.single_cell.cell_barcode_read assay.single_cell.barcode_read
RENAME assay.single_cell.cell_barcode_size assay.single_cell.barcode_size
RENAME assay.single_cell.method assay.single_cell.cell_handling
RENAME assay.sra_experiment assay.seq.sra_experiment
RENAME assay.sra_run assay.seq.sra_run
DELETE assay.submitted_file_names
RENAME cell.cell_cycle sample.cell_cycle.text
RENAME cell.characteristics_cd10 sample.characteristics_cd10
RENAME cell.characteristics_cd135 sample.characteristics_cd135
RENAME cell.characteristics_cd34 sample.characteristics_cd34
RENAME cell.characteristics_cd38 sample.characteristics_cd38
RENAME cell.characteristics_cd45ra sample.characteristics_cd45ra
RENAME cell.characteristics_cd49f sample.characteristics_cd49f
RENAME cell.characteristics_cd7 sample.characteristics_cd7
RENAME cell.characteristics_cd90 sample.characteristics_cd90
RENAME cell.characteristics_facs_time sample.characteristics_facs_time
RENAME cell.characteristics_fsc_a sample.characteristics_fsc_a
RENAME cell.characteristics_fsc_h sample.characteristics_fsc_h
RENAME cell.characteristics_fsc_w sample.characteristics_fsc_w
RENAME cell.characteristics_lin sample.characteristics_lin
RENAME cell.characteristics_ssc-w sample.characteristics_ssc-w
RENAME cell.characteristics_ssc_a sample.characteristics_ssc_a
RENAME cell.characteristics_ssc_h sample.characteristics_ssc_h
RENAME cell.id sample.well.core.id
RENAME cell.ontology sample.well.cell_type.ontology
RENAME cell.type sample.well.cell_type.text
RENAME cell.well_quality sample.well.quality
RENAME project.array_express.accession project.array_express_investigation
DELETE project.array_express.experiment_type
RENAME project.array_express.related_experiment project.related_projects
DELETE project.array_express.term_source_file
DELETE project.array_express.term_source_name
RENAME project.contact.address project.submitter.address
RENAME project.contact.city project.submitter.city
RENAME project.contact.country project.submitter.country
DELETE project.contact.department
RENAME project.contact.email project.submitter.email
RENAME project.contact.institute project.submitter.institution
RENAME project.contact.laboratory project.submitter.laboratory
RENAME project.contact.name project.submitter.name
DELETE project.contact.phone
DELETE project.contact.postal_code
RENAME project.contact.state project.submitter.country_division
DELETE project.contact.street_address
MODIFY project.contributor project.contributors
RENAME project.ddjb_trace_project project.ddjb_trace
KEEP project.experimental_factor_name project.experimental_factor_name
DELETE project.geo_doc_id
DELETE project.geo_parent_series
RENAME project.array_express.related_experiment project.related_projects
KEEP project.geo_series project.geo_series
RENAME project.id project.core.id
RENAME project.last_update_date project.update_date
DELETE project.mage_tab_version project.mage_tab_version
KEEP project.ncbi_bioproject project.ncbi_bioproject
RENAME project.overall_design project.experimental_design.1.text
RENAME project.pmid project.publications.1.pmid
RENAME project.publication_author_list project.publications.1.author_list
DELETE project.release_status
KEEP project.sra_project project.sra_project
RENAME project.submission_date project.submit_date
RENAME project.summary project.description
KEEP project.supplementary_files project.supplementary_files
KEEP project.title project.title
DELETE project.uuid
KEEP sample.biosd_sample sample.biosd_sample
RENAME sample.body_part.cell_count sample.total_estimated_cells
RENAME sample.body_part.name sample.body_part.text
RENAME sample.body_part.ontology sample.body_part.ontology
RENAME sample.body_part.organ sample.organ.text
RENAME sample.body_part.organ_ontology sample.organ.ontology
DELETE sample.body_part.source
RENAME sample.cell_line sample.cell_line.name.text
KEEP sample.characteristics_c1_chip_id sample.characteristics_c1_chip_id
KEEP sample.characteristics_cef sample.characteristics_cef
KEEP sample.characteristics_clone.info sample.characteristics_clone.info
KEEP sample.characteristics_cross sample.characteristics_cross
KEEP sample.characteristics_donor_age sample.characteristics_donor_age
KEEP sample.characteristics_experiment_sample_name sample.characteristics_experiment_sample_name
KEEP sample.characteristics_facs_gating sample.characteristics_facs_gating
KEEP sample.characteristics_inferred_cell_type sample.characteristics_inferred_cell_type
KEEP sample.characteristics_plate sample.characteristics_plate
KEEP sample.characteristics_time sample.characteristics_time
DELETE sample.data_processing
KEEP sample.donor.age sample.donor.age
KEEP sample.donor.age_unit sample.donor.age_unit.text
KEEP sample.donor.body_mass_index sample.donor.body_mass_index
RENAME sample.donor.development_stage sample.donor.development_stage.text
RENAME sample.donor.disease sample.donor.disease.1.text
RENAME sample.donor.ethnicity sample.donor.ancestry.1.text
KEEP sample.donor.genotype sample.donor.genotype
RENAME sample.donor.id sample.donor.submitted_id
KEEP sample.donor.life_stage sample.donor.life_stage
RENAME sample.donor.medication sample.donor.medication.1.text
RENAME sample.donor.ncbi_taxon sample.donor.species.1.ontology
KEEP sample.donor.sex sample.donor.sex
RENAME sample.donor.species sample.donor.species.1.text
RENAME sample.donor.strain sample.donor.strain.1.text
RENAME sample.donor.uuid sample.donor.core.id
KEEP sample.ena_sample sample.ena_sample
KEEP sample.geo_sample sample.geo_sample
RENAME sample.id sample.submitter_id
RENAME sample.last_update_date sample.update_date
RENAME sample.long_label sample.title
KEEP sample.ncbi_biosample sample.ncbi_biosample
RENAME sample.passage_number sample.cell_line.passage_number
MODIFY sample.protocol_types project.protocols.1.type
MODIFY sample.protocols project.protocols.1.description
RENAME sample.short_label sample.name
RENAME sample.storage sample.preservation.storage_protocol.description
RENAME sample.submission_date sample.submit_date
KEEP sample.supplementary_files sample.supplementary_files
RENAME sample.treatment.culture_type sample.culture_type
RENAME sample.treatment.enrichment sample.enrichment.markers
RENAME sample.treatment.enrichment_method sample.enrichment.protocol.text
RENAME sample.uuid sample.core.id