Kelly Vincent 6308d93385 Further tweaks to Picard help text

2011-05-18 16:50:37 -04:00

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picard_AddOrReplaceReadGroups.xml

Further tweaks to Picard help text

2011-05-18 16:50:37 -04:00

picard_BamIndexStats.xml

Further tweaks to Picard help text

2011-05-18 16:50:37 -04:00

picard_MarkDuplicates.xml

cleaned up picard tool names - own section so (picard) was redundant

2011-05-17 13:04:35 -04:00

picard_ReorderSam.xml

Further tweaks to Picard help text

2011-05-18 16:50:37 -04:00

picard_ReplaceSamHeader.xml

Further tweaks to Picard help text

2011-05-18 16:50:37 -04:00

picard_wrapper.py

Numerous updates to Picard tools: Cleaned up and standardized wrapper's Python code, removing redundant variables and using the same ones in different segment of code when possible; Changed sam/bam outputs to be bam by default and use change_format if user requests sam and removed redundant output parameters; Got tests passing for AddOrReplaceReadGroups; Relaxed the matching constraints for output for BamIndexStats and InsertSize wrappers Standardized on the parameter output-format rather than newformat to indicate sam preference over bam

2011-05-17 01:57:04 -04:00

rgPicardASMetrics.xml

Further tweaks to Picard help text

2011-05-18 16:50:37 -04:00

rgPicardFixMate.xml

Further tweaks to Picard help text

2011-05-18 16:50:37 -04:00

rgPicardGCBiasMetrics.xml

Further tweaks to Picard help text

2011-05-18 16:50:37 -04:00

rgPicardHsMetrics.xml

Further tweaks to Picard help text

2011-05-18 16:50:37 -04:00

rgPicardInsertSize.xml

Further tweaks to Picard help text

2011-05-18 16:50:37 -04:00

rgPicardLibComplexity.xml

Further tweaks to Picard help text

2011-05-18 16:50:37 -04:00

rgPicardMarkDups.xml

Further tweaks to Picard help text

2011-05-18 16:50:37 -04:00