Tag Archives: Biopython

Biopython 1.57 released

The Biopython community is pleased to announce the release of Biopython 1.57. Source distributions and Windows installers are available from the downloads page on the Biopython website and from the Python Package Index. Bio.SeqIO now includes an index_db() function which … Continue reading

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Biopython 1.56 released

The Biopython team is pleased to release Biopython 1.56, almost exactly three months after our last stable release (Biopython 1.55). The Bio.SeqIO module has been updated to support protein EMBL files (used for the patents database), IMGT files (a variant … Continue reading

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Biopython dropping Python 2.4 Support?

The forthcoming Biopython 1.56 release is planned to be our last release to support Python 2.4. If you would be negatively affected us dropping support for Python 2.4, please let us know as soon as possible. Continue reading

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Biopython 1.55 released

The Biopython team is proud to announce Biopython 1.55, a new stable release, about three months after our last stable release (Biopython 1.54) and the beta release earlier in August. A lot of work has been towards Python 3 support … Continue reading

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Biopython 1.55 beta released

We’ve just released a beta of Biopython 1.55 for user testing. Since Biopython 1.54 was released three months ago, we’ve made a good start on work for Python 3 support (via the 2to3 script), but as a side effect of … Continue reading

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Biopython 1.54 released

The Biopython team is proud to announce Biopython 1.54, a new stable release of the Biopython library. Biopython 1.54 comes five months after our last release and brings new features, tweaks to some established functions and the usual collection of … Continue reading

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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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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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