New Biopieces: analyze_scores

[Martin Asser Hansen]

Hello all,

Here is a new Biopieces analyze_scores for the analysis of Illumina type SCORES in the stream. With this it is now possible to do:

read_fastq -i test.fq | analyze_scores | analyze_vals | write_tab -cpx

+---------------+------------+-------+-------+-------+---------+-------+

| KEY           | TYPE       | COUNT | MIN   | MAX   | SUM     | MEAN  |

+---------------+------------+-------+-------+-------+---------+-------+

| SEQ_NAME      | Alphabetic |   100 |    43 |    44 |    4358 | 43.58 |

| SEQ           | Alphabetic |   100 |    50 |    50 |    5000 | 50.00 |

| SEQ_LEN       | Numeric    |   100 |    50 |    50 |    5000 | 50.00 |

| SCORES        | Alphabetic |   100 |    50 |    50 |    5000 | 50.00 |

| SCORES_LEN    | Numeric    |   100 |    50 |    50 |    5000 | 50.00 |

| SCORES_MIN    | Numeric    |   100 |     0 |    32 |     925 |  9.25 |

| SCORES_MAX    | Numeric    |   100 |    34 |    38 |    3693 | 36.93 |

| SCORES_MEAN   | Numeric    |   100 | 15.30 | 36.84 | 3145.18 | 31.45 |

| SCORES_MEDIAN | Numeric    |   100 |     2 |    37 |    3371 | 33.71 |

+---------------+------------+-------+-------+-------+---------+-------+

Read more here:

https://code.google.com/p/biopieces/wiki/analyze_scores

bp_update && bp_test

Cheers,

Martin