John Chilton 51e269cf9b FASTQ Opt: Eliminate a few extra calls to is_ascii_encoded. ...

Kept 135848 of 250000 reads (54.34%).
         117127015 function calls (116877015 primitive calls) in 38.632 seconds

Down from 39.416 seconds on previous changeset. Main Difference

(ncalls|tottime|percall|cumtime|percall|filename:lineno(function))

   385848   11.289    0.000   15.499    0.000 fastq.py:91(get_decimal_quality_scores)
  1271696    0.716    0.000    0.716    0.000 fastq.py:71(is_ascii_encoded)

   250000    0.185    0.000   10.434    0.000 fastq.py:107(get_decimal_quality_scores)
   385848   11.380    0.000   15.368    0.000 fastq.py:109(__get_decimal_quality_scores)
  1135848    0.649    0.000    0.649    0.000 fastq.py:71(is_ascii_encoded)

2013-11-12 22:02:58 -06:00

..

sequence

FASTQ Opt: Eliminate a few extra calls to is_ascii_encoded.

2013-11-12 22:02:58 -06:00

__init__.py

Add a new FASTQ tool suite. Four FASTQ variants are supported: sanger, illumina, solexa and solid.

2010-02-23 16:48:07 -05:00