-
Notifications
You must be signed in to change notification settings - Fork 0
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
parentage script and outputs BootPed
- Loading branch information
Showing
15 changed files
with
4,709 additions
and
601 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,46 +1,46 @@ | ||
| Broodstock_ID,Treatment,vcf_ID_raw,ID,Batch_1,Batch_2,Batch_3,Batch_4,key,Ped | ||
| 1,High,adapter_trim.F3-B1-pH7.bam,F3-B1-pH7,F,M,NA,NA,Pa,Both | ||
| 2,High,adapter_trim.F3-B2-pH7.bam,F3-B2-pH7,F,M,NA,NA,Pa,Both | ||
| 3,High,adapter_trim.F3-B3-pH7.bam,F3-B3-pH7,M,NA,NA,NA,Fa,Sire | ||
| 4,High,adapter_trim.F3-B4-pH7.bam,F3-B4-pH7,M,F,NA,NA,Pa,Both | ||
| 5,High,adapter_trim.F3-B5-pH7.bam,F3-B5-pH7,NA,NA,M,NA,Fa,Sire | ||
| 6,High,adapter_trim.F3-B6-pH7.bam,F3-B6-pH7,NA,F,NA,NA,Mo,Dam | ||
| 7,High,adapter_trim.F3-B7-pH7.bam,F3-B7-pH7,NA,NA,F,NA,Mo,Dam | ||
| 8,High,adapter_trim.F3-B8-pH7.bam,F3-B8-pH7,NA,NA,NA,M,Fa,Sire | ||
| 9,High,adapter_trim.F3-B9-pH7.bam,F3-B9-pH7,NA,F,NA,NA,Mo,Dam | ||
| 10,High,adapter_trim.F3-B10-pH7.bam,F3-B10-pH7,F,NA,M,NA,Pa,Both | ||
| 12,High,adapter_trim.F3-B12-pH7.bam,F3-B12-pH7,NA,NA,F,NA,Mo,Dam | ||
| 15,High,adapter_trim.F3-B15-pH7.bam,F3-B15-pH7,NA,NA,NA,F,Mo,Dam | ||
| 16,High,adapter_trim.F3-B16-pH7.bam,F3-B16-pH7,NA,NA,NA,F,Mo,Dam | ||
| 18,High,adapter_trim.F3-B18-pH7.bam,F3-B18-pH7,NA,NA,F,NA,Mo,Dam | ||
| 19,High,adapter_trim.F3-B19-pH7.bam,F3-B19-pH7,NA,NA,NA,F,Mo,Dam | ||
| 25,High,adapter_trim.F3-B25-pH7.bam,F3-B25-pH7,NA,NA,NA,M,Fa,Sire | ||
| 1,Moderate,adapter_trim.F3-B1-pH75.bam,F3-B1-pH75,NA,F,M,NA,Pa,Both | ||
| 2,Moderate,adapter_trim.F3-B2-pH75.bam,F3-B2-pH75,F,NA,NA,NA,Mo,Dam | ||
| 3,Moderate,adapter_trim.F3-B3-pH75.bam,F3-B3-pH75,NA,NA,NA,F,Mo,Dam | ||
| 5,Moderate,adapter_trim.F3-B5-pH75.bam,F3-B5-pH75,NA,F,NA,NA,Mo,Dam | ||
| 6,Moderate,adapter_trim.F3-B6-pH75.bam,F3-B6-pH75,NA,NA,F,NA,Mo,Dam | ||
| 10,Moderate,adapter_trim.F3-B10-pH75.bam,F3-B10-pH75,NA,NA,M,NA,Fa,Sire | ||
| 11,Moderate,adapter_trim.F3-B11-pH75.bam,F3-B11-pH75,F,M,NA,NA,Pa,Both | ||
| 14,Moderate,adapter_trim.F3-B14-pH75.bam,F3-B14-pH75,M,F,NA,NA,Pa,Both | ||
| 16,Moderate,adapter_trim.F3-B16-pH75.bam,F3-B16-pH75,M,NA,NA,NA,Fa,Sire | ||
| 17,Moderate,adapter_trim.F3-B17-pH75.bam,F3-B17-pH75,NA,M,F,NA,Pa,Both | ||
| 19,Moderate,adapter_trim.F3-B19-pH75.bam,F3-B19-pH75,F,NA,NA,M,Pa,Both | ||
| 21,Moderate,adapter_trim.F3-B21-pH75.bam,F3-B21-pH75,NA,NA,F,NA,Mo,Dam | ||
| 22,Moderate,adapter_trim.F3-B22-pH75.bam,F3-B22-pH75,NA,NA,NA,M,Fa,Sire | ||
| 24,Moderate,adapter_trim.F3-B24-pH75.bam,F3-B24-pH75,NA,NA,NA,F,Mo,Dam | ||
| 25,Moderate,adapter_trim.F3-B25-pH75.bam,F3-B25-pH75,NA,NA,NA,F,Mo,Dam | ||
| 1,Low,adapter_trim.F3-B1-pH8.bam,F3-B1-pH8,F,NA,NA,NA,Mo,Dam | ||
| 2,Low,adapter_trim.F3-B2-pH8.bam,F3-B2-pH8,F,NA,NA,M,Pa,Both | ||
| 3,Low,adapter_trim.F3-B3-pH8.bam,F3-B3-pH8,NA,NA,NA,M,Pa,Both | ||
| 5,Low,adapter_trim.F3-B5-pH8.bam,F3-B5-pH8,F,NA,NA,NA,Mo,Dam | ||
| 6,Low,adapter_trim.F3-B6-pH8.bam,F3-B6-pH8,NA,M,NA,F,Pa,Both | ||
| 7,Low,adapter_trim.F3-B7-pH8.bam,F3-B7-pH8,NA,M,F,NA,Pa,Both | ||
| 8,Low,adapter_trim.F3-B8-pH8.bam,F3-B8-pH8,NA,NA,M,F,Pa,Both | ||
| 10,Low,adapter_trim.F3-B10-pH8.bam,F3-B10-pH8,NA,F,NA,NA,Mo,Dam | ||
| 11,Low,adapter_trim.F3-B11-pH8.bam,F3-B11-pH8,M,NA,NA,NA,Fa,Sire | ||
| 12,Low,adapter_trim.F3-B12-pH8.bam,F3-B12-pH8,M,NA,F,NA,Pa,Both | ||
| 13,Low,adapter_trim.F3-B13-pH8.bam,F3-B13-pH8,NA,NA,F,NA,Mo,Dam | ||
| 15,Low,adapter_trim.F3-B15-pH8.bam,F3-B15-pH8,NA,F,NA,NA,Mo,Dam | ||
| 16,Low,adapter_trim.F3-B16-pH8.bam,F3-B16-pH8,NA,NA,M,F,Pa,Both | ||
| 23,Low,adapter_trim.F3-B23-pH8.bam,F3-B23-pH8,NA,F,NA,NA,Mo,Dam | ||
| 1,High,adapter_trim.F2-B1-pH7.bam,F2-B1-pH7,F,M,NA,NA,Pa,Both | ||
| 2,High,adapter_trim.F2-B2-pH7.bam,F2-B2-pH7,F,M,NA,NA,Pa,Both | ||
| 3,High,adapter_trim.F2-B3-pH7.bam,F2-B3-pH7,M,NA,NA,NA,Fa,Sire | ||
| 4,High,adapter_trim.F2-B4-pH7.bam,F2-B4-pH7,M,F,NA,NA,Pa,Both | ||
| 5,High,adapter_trim.F2-B5-pH7.bam,F2-B5-pH7,NA,NA,M,NA,Fa,Sire | ||
| 6,High,adapter_trim.F2-B6-pH7.bam,F2-B6-pH7,NA,F,NA,NA,Mo,Dam | ||
| 7,High,adapter_trim.F2-B7-pH7.bam,F2-B7-pH7,NA,NA,F,NA,Mo,Dam | ||
| 8,High,adapter_trim.F2-B8-pH7.bam,F2-B8-pH7,NA,NA,NA,M,Fa,Sire | ||
| 9,High,adapter_trim.F2-B9-pH7.bam,F2-B9-pH7,NA,F,NA,NA,Mo,Dam | ||
| 10,High,adapter_trim.F2-B10-pH7.bam,F2-B10-pH7,F,NA,M,NA,Pa,Both | ||
| 12,High,adapter_trim.F2-B12-pH7.bam,F2-B12-pH7,NA,NA,F,NA,Mo,Dam | ||
| 15,High,adapter_trim.F2-B15-pH7.bam,F2-B15-pH7,NA,NA,NA,F,Mo,Dam | ||
| 16,High,adapter_trim.F2-B16-pH7.bam,F2-B16-pH7,NA,NA,NA,F,Mo,Dam | ||
| 18,High,adapter_trim.F2-B18-pH7.bam,F2-B18-pH7,NA,NA,F,NA,Mo,Dam | ||
| 19,High,adapter_trim.F2-B19-pH7.bam,F2-B19-pH7,NA,NA,NA,F,Mo,Dam | ||
| 25,High,adapter_trim.F2-B25-pH7.bam,F2-B25-pH7,NA,NA,NA,M,Fa,Sire | ||
| 1,Moderate,adapter_trim.F2-B1-pH75.bam,F2-B1-pH75,NA,F,M,NA,Pa,Both | ||
| 2,Moderate,adapter_trim.F2-B2-pH75.bam,F2-B2-pH75,F,NA,NA,NA,Mo,Dam | ||
| 3,Moderate,adapter_trim.F2-B3-pH75.bam,F2-B3-pH75,NA,NA,NA,F,Mo,Dam | ||
| 5,Moderate,adapter_trim.F2-B5-pH75.bam,F2-B5-pH75,NA,F,NA,NA,Mo,Dam | ||
| 6,Moderate,adapter_trim.F2-B6-pH75.bam,F2-B6-pH75,NA,NA,F,NA,Mo,Dam | ||
| 10,Moderate,adapter_trim.F2-B10-pH75.bam,F2-B10-pH75,NA,NA,M,NA,Fa,Sire | ||
| 11,Moderate,adapter_trim.F2-B11-pH75.bam,F2-B11-pH75,F,M,NA,NA,Pa,Both | ||
| 14,Moderate,adapter_trim.F2-B14-pH75.bam,F2-B14-pH75,M,F,NA,NA,Pa,Both | ||
| 16,Moderate,adapter_trim.F2-B16-pH75.bam,F2-B16-pH75,M,NA,NA,NA,Fa,Sire | ||
| 17,Moderate,adapter_trim.F2-B17-pH75.bam,F2-B17-pH75,NA,M,F,NA,Pa,Both | ||
| 19,Moderate,adapter_trim.F2-B19-pH75.bam,F2-B19-pH75,F,NA,NA,M,Pa,Both | ||
| 21,Moderate,adapter_trim.F2-B21-pH75.bam,F2-B21-pH75,NA,NA,F,NA,Mo,Dam | ||
| 22,Moderate,adapter_trim.F2-B22-pH75.bam,F2-B22-pH75,NA,NA,NA,M,Fa,Sire | ||
| 24,Moderate,adapter_trim.F2-B24-pH75.bam,F2-B24-pH75,NA,NA,NA,F,Mo,Dam | ||
| 25,Moderate,adapter_trim.F2-B25-pH75.bam,F2-B25-pH75,NA,NA,NA,F,Mo,Dam | ||
| 1,Low,adapter_trim.F2-B1-pH8.bam,F2-B1-pH8,F,NA,NA,NA,Mo,Dam | ||
| 2,Low,adapter_trim.F2-B2-pH8.bam,F2-B2-pH8,F,NA,NA,M,Pa,Both | ||
| 3,Low,adapter_trim.F2-B3-pH8.bam,F2-B3-pH8,NA,NA,NA,M,Pa,Both | ||
| 5,Low,adapter_trim.F2-B5-pH8.bam,F2-B5-pH8,F,NA,NA,NA,Mo,Dam | ||
| 6,Low,adapter_trim.F2-B6-pH8.bam,F2-B6-pH8,NA,M,NA,F,Pa,Both | ||
| 7,Low,adapter_trim.F2-B7-pH8.bam,F2-B7-pH8,NA,M,F,NA,Pa,Both | ||
| 8,Low,adapter_trim.F2-B8-pH8.bam,F2-B8-pH8,NA,NA,M,F,Pa,Both | ||
| 10,Low,adapter_trim.F2-B10-pH8.bam,F2-B10-pH8,NA,F,NA,NA,Mo,Dam | ||
| 11,Low,adapter_trim.F2-B11-pH8.bam,F2-B11-pH8,M,NA,NA,NA,Fa,Sire | ||
| 12,Low,adapter_trim.F2-B12-pH8.bam,F2-B12-pH8,M,NA,F,NA,Pa,Both | ||
| 13,Low,adapter_trim.F2-B13-pH8.bam,F2-B13-pH8,NA,NA,F,NA,Mo,Dam | ||
| 15,Low,adapter_trim.F2-B15-pH8.bam,F2-B15-pH8,NA,F,NA,NA,Mo,Dam | ||
| 16,Low,adapter_trim.F2-B16-pH8.bam,F2-B16-pH8,NA,NA,M,F,Pa,Both | ||
| 23,Low,adapter_trim.F2-B23-pH8.bam,F2-B23-pH8,NA,F,NA,NA,Mo,Dam |
Oops, something went wrong.