Mercurial > repos > drosofff > msp_blastparser_and_hits
comparison BlastParser_and_hits.py @ 5:a0dec1a0f2ef draft
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/msp_blastparser_and_hits commit 59dcca02907c91f852e63db16acd72c9d79d6eb2
| author | drosofff |
|---|---|
| date | Fri, 15 Jan 2016 12:51:19 -0500 |
| parents | 60b6bd959929 |
| children | 78c34df2dd8d |
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| 4:60b6bd959929 | 5:a0dec1a0f2ef |
|---|---|
| 129 leftCoordinate = 1 | 129 leftCoordinate = 1 |
| 130 return getseq (fastadict, FastaHeader, leftCoordinate, rightCoordinate, polarity) | 130 return getseq (fastadict, FastaHeader, leftCoordinate, rightCoordinate, polarity) |
| 131 | 131 |
| 132 def outputParsing (F, Fasta, results, Xblastdict, fastadict, filter_relativeCov=0, filter_maxScore=0, filter_meanScore=0, filter_term_in="", filter_term_out="", mode="verbose"): | 132 def outputParsing (F, Fasta, results, Xblastdict, fastadict, filter_relativeCov=0, filter_maxScore=0, filter_meanScore=0, filter_term_in="", filter_term_out="", mode="verbose"): |
| 133 def filter_results (results, filter_relativeCov=0, filter_maxScore=0, filter_meanScore=0, filter_term_in="", filter_term_out=""): | 133 def filter_results (results, filter_relativeCov=0, filter_maxScore=0, filter_meanScore=0, filter_term_in="", filter_term_out=""): |
| 134 print "###", filter_term_in | |
| 135 for subject in results.keys(): | 134 for subject in results.keys(): |
| 136 if results[subject]["RelativeSubjectCoverage"]<filter_relativeCov: | 135 if results[subject]["RelativeSubjectCoverage"]<filter_relativeCov: |
| 137 del results[subject] | 136 del results[subject] |
| 138 continue | 137 continue |
| 139 if results[subject]["maxBitScores"]<filter_maxScore: | 138 if results[subject]["maxBitScores"]<filter_maxScore: |