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= Usage =
= Usage =
./bam splitBam [-v] -i <inputBAMFile> -o <outPrefix> [-L logFile]
= Parameters =
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<pre>
Required arguments:
-i/--in [inputBAMFile] : Original BAM file containing readGroup info
-o/--out [outPrefix] : prefix of output bam files of [outprefix].[RGID].bam
Optional arguments:
-L/--log [logFile] : log file name. default is listFile.log
-v/--verbose : turn on verbose mode
-n/--noeof : turn off the check for an EOF block at the end of a bam file
</pre>
</pre>
{{PhoneHomeParamDesc}}
== Required Parameters ==
{{InBAMInputFile}}
=== Output File Basename (<code>--out</code>) ===
Use <code>--out</code> followed by the base output filename (no extension) to specify the BAM basename to use for the output files.
The read group name and <code>.bam</code> will be appended to the specified basename.
== Optional Parameters ==
=== Specify Log Filename (<code>--log</code>) ===
Use <code>--log</code> followed by the log filename to specify the log filename. Default is the output file basename with a <code>.log</code> extension
=== Verbose (<code>--verbose</code>) ===
Use <code>--verbose</code> to turn on verbose mode.
{{noeofBGZFParameter}}
{{PhoneHomeParameters}}
[[Category:BamUtil|splitBam]]
[[Category:BamUtil|splitBam]]
[[Category:BAM Software]]
[[Category:BAM Software]]
[[Category:Software]]
[[Category:Software]]
