wiki:BIOS_Pipeline/5ddcae7

Version 1 (modified by jamverlouw, 9 months ago) (diff)

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rp3_rna_run_20131004 5ddcae7

This are the samples associated with freeze 1.

Sample count

2270 samples + 30 redos + 30 merged originals_redos

Errors

For 64 samples the pipeline was rerun due to missing files (Mainly BAM), see 6d401ed for these.

Summarized output files:

  • JSON database dump of run database: srm://srm.grid.sara.nl/pnfs/grid.sara.nl/data/bbmri.nl/RP3/production/summaries/run_1.json
  • Tab-delimited file of QC values (contains all sample statistics from run database & sample database): srm://srm.grid.sara.nl/pnfs/grid.sara.nl/data/bbmri.nl/RP3/production/summaries/run_1_stats.tsv
  • Gene counts of all samples: srm://srm.grid.sara.nl/pnfs/grid.sara.nl/data/bbmri.nl/RP3/production/summaries/run_1_gene_counts.tar.gz
  • Exon counts of all samples: srm://srm.grid.sara.nl/pnfs/grid.sara.nl/data/bbmri.nl/RP3/production/summaries/run_1_exon_counts.tar.gz
  • Transcript counts of all samples: srm://srm.grid.sara.nl/pnfs/grid.sara.nl/data/bbmri.nl/RP3/production/summaries/run_1_transript_counts.tar.gz