Changes

GotCloud: Alignment Sub-Pipelines (view source)

230 bytes removed , 21:27, 18 March 2015

Line 237: Line 237:

# sample id

# comma separated population labels (optional column)

−

# BAM File 1 (preferable to have full paths to BAM files)

+

# BAM File (preferable to have full paths to BAM files)

−

~~# BAM File 2 (if more than 1 BAM per sample)~~

−

~~:...~~

−

~~: # BAM File N (if more than 1 BAM per sample)~~

+

[SAMPLE_ID] [COMMA SEPARATED POPULATION LABELS] [BAM_FILE1]

−

[SAMPLE_ID] [COMMA SEPARATED POPULATION LABELS] [BAM_FILE1] ~~[BAM_FILE2] ...~~

or

−

[SAMPLE_ID] [BAM_FILE1] ~~[BAM_FILE2] ...~~

+

[SAMPLE_ID] [BAM_FILE1]

* Notes:

** tab delimited

−

** multiple BAMs per individual may be provided, but should all be on the same line of the list file

** population label is optional - it will default to <code>ALL</code>

*** only used by Thunder (part of ldrefine pipeline)

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