Changes between Initial Version and Version 1 of BIOS_FileBackups

Timestamp:

Sep 27, 2016 2:48:23 PM (9 years ago)

Author:

jamverlouw

Comment:

--

BIOS_FileBackups

@@ +1 @@
+This page describes which BIOS files are backed up and where on the SRM of life science grid.
+
+The following directories are copied to the SRM backup folder where all files are backed up by SURFsara on their tapes.
+{{{
+ /pnfs/grid.sara.nl/data/bbmri.nl/RP3/RNASeq
+ /pnfs/grid.sara.nl/data/bbmri.nl/RP3/IlluminaHumanMethylation450k
+ /pnfs/grid.sara.nl/data/bbmri.nl/RP3/Phenotypes
+ /pnfs/grid.sara.nl/data/bbmri.nl/RP3/GWAS_ImputationGoNLv4/
+ /pnfs/grid.sara.nl/data/bbmri.nl/RP3/GWAS_ImputationGoNLv5/
+}}}
+
+== RNAseq ==
+====  Raw data from ErasmusMC ====
+  * Files: <flowcell ID>-<lane ID>-<index ID>_R1.fq.gz, <flowcell ID>-<lane ID>-<index ID>_R2.fq.gz, <flowcell ID>-<lane ID>-<index ID>-remaining.tar.gz
+  * Location 
+   * srm://srm.grid.sara.nl/pnfs/grid.sara.nl/data/bbmri.nl/backup/RP3/RNASeq
+  * Backup log
+   * 2014-01-21: 4888 files are backed up. only fastq files. 2444 samples? Adler checksum is verified but not md5. 
+
+==== Results of standard analysis using LSG pipeline ====
+  * Files: *.exon.count, *.transcript.count, *.gene.count, *.sorted.bam, *.run.log.
+  * Location
+  * Backup log
+   * 
+
+== Methylation ==
+==== Raw data from ErasmusMC ====
+  * Files: <biobank>_sample_sheet.csv, *.idat
+  * Location 
+   * srm://srm.grid.sara.nl/pnfs/grid.sara.nl/data/bbmri.nl/backup/RP3/IlluminaHumanMethylation450k/LL_sample_sheet.csv 
+   * srm://srm.grid.sara.nl/pnfs/grid.sara.nl/data/bbmri.nl/backup/RP3/IlluminaHumanMethylation450k/9285451044/9285451044_R03C02_Grn.i
+  * Backup log
+
+== Phenotype ==