Opened 18 months ago

Closed 18 months ago

#1336 closed enhancement (fixed)

Use the average read length from FASTQ files when calculating --mate-inner-dist parameter to Tophat

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: major Milestone: Reggie v4.33
Component: net.sf.basedb.reggie Keywords:
Cc:

Description

See #1335. If the values from the FASTQ files are available, we should use them when calculating the --mate-inner-dist parameter instead of the ReadString template.

Change History (2)

comment:1 Changed 18 months ago by Nicklas Nordborg

Summary: Use the average read length from FASTQ files when calculating --mate-inner-dist parameter to Yophat → Use the average read length from FASTQ files when calculating --mate-inner-dist parameter to Tophat

comment:2 Changed 18 months ago by Nicklas Nordborg

Resolution: → fixed
Status: new → closed

In 6422:

Fixes #1336: Use the average read length from FASTQ files when calculating --mate-inner-dist parameter to Tophat

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