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, 09:31, 27 June 2016
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| | * List of Sample Numbers | | * List of Sample Numbers |
| | ** | | ** |
| − | * Recalibrated and deduced BAM Files (can be found in the following locations)
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| − | ** /net/sardinia/progenia/SardiNIA/Pula_Final/BAMS/by_sample/*.bam
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| − | ** /net/sardinia/progenia/SardiNIA/recal_20150210/*.recal.bam
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| − | ** /net/sardinia/progenia/SardiNIA/recal_20150330/*.recal.bam
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| − | ** /net/mrtoad/stuff.from.csgspare/gpistis/Deduped_recalibrated_BAMS/*.uniq.dedup.recal.bam
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| − | ** /net/sardinia/progenia/SardiNIA/bams/decoy_ref/by_sample/*.bam
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| − | ** /net/sardinia/progenia/SardiNIA/VariantCalling_20150330/RealigningCarlosSamples/Giorgio_Carlo_merged_20150412/*.CG.recal.merged.bam
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| − | *** some BAM files were generated by Carlo and Giorgio separately for the same individual. These BAMs were merged, recalibrated, and deduped and can be found here
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| | | | |
| | + | * List of paths to BAMs used in this data freeze |
| | + | ** |
| | | | |
| | + | * QC for all 3840 samples |
| | + | ** |
| | + | |
| | + | * Summary of Copy Number for 3840 samples |
| | + | **/net/sardinia/progenia/SardiNIA/VariantCalling_20150330/MTDNA_COPYNUMBER/Coverage_IncludingUnpairedReads/sardiniaCopyNumber_include.txt |
| | + | ** Individual copy number results by sample can be found: /net/sardinia/progenia/SardiNIA/VariantCalling_20150330/MTDNA_COPYNUMBER/Coverage_IncludingUnpairedReads/*.CopyNumber.noRand.500000.*.txt |
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| | === What is Complete === | | === What is Complete === |
