Alignment data release 2

[fpbarthel]

Several new sets of samples arrives and we need to create the manifest (@Kcjohnson and @moskalika ) and process the data (@fpbarthel).

• [x] DKFZ cohort (DK, 45 samples, 135 readgroups)
  • [x] Manifest (@Kcjohnson, @moskalika)
  • [x] Pre-processing (@fpbarthel)
• [x] Dana Farber cohort (DF, 27 samples, 641 readgroups)
  • [x] Manifest (@Kcjohnson, @moskalika)
  • [x] Pre-processing (@fpbarthel)
• [x] MGH cohort (MG, 36 samples, 801 readgroups)
  • [x] Manifest (@Kcjohnson, @moskalika)
  • [x] Pre-processing (@fpbarthel)
• [x] Case Western cohort (19, 13 patients, 55 samples, 326 readgroups)
  • [x] Manifest (@Kcjohnson, @moskalika)
  • [x] Pre-processing (@fpbarthel)

Add aligned BAM record to files table (@fpbarthel)

• [x] DKFZ
• [x] Dana Farber
• [x] MGH
• [x] Case Western

Fingerprinting (@fpbarthel)

• [x] DKFZ > no mismatches
• [x] Dana Farber > no mismatches
• [x] MGH > no mismatches
• [x] Case Western > no mismatches

[fpbarthel]

@moskalika @Kcjohnson please edit post above to add any pending cohorts

[fpbarthel]

As of 2/26 all alignments are officially done