Monthly Archives: April 2010

Illumina FASTQ files – Read Segment Quality Control Indicator

In another quirk to the FASTQ story, recent Illumina FASTQ files don’t actually use the full range of PHRED scores – and a score of 2 has a special meaning, The Read Segment Quality Control Indicator (RSQCI, encoded as ‘B’). … Continue reading

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Partial sequence files with Biopython

This is another blog post to highlight one of the neat tricks you’ll be able to do with Biopython 1.54 (which you can help test with the Biopython 1.54 beta release). It is often useful to be able to extract … Continue reading

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Reminder: BOSC Abstract Deadline April 15

Just a friendly reminder that abstracts for BOSC 2010 are due next Thursday, April 15.  See the BOSC web site at http://www.open-bio.org/wiki/BOSC_2010 for details.  Submissions will only be accepted electronically at http://events.open-bio.org/BOSC2010/openconf.php. Graduate students, don’t forget we are offering $250 … Continue reading

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Making Biopython SeqIO and AlignIO easier

One of the small changes coming in Biopython 1.54 (which you can try out already using the Biopython 1.54 beta) is to Bio.SeqIO and Bio.AlignIO. Previously the input and output functions had required file handles, but they will now also … Continue reading

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Biopython 1.54 beta released

A beta release for Biopython 1.54 is now available for download and testing.
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