Mercurial > repos > mheinzl > hd
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planemo upload for repository https://github.com/monikaheinzl/duplexanalysis_galaxy/tree/master/tools/hd commit b8a2f7b7615b2bcd3b602027af31f4e677da94f6
| author | mheinzl |
|---|---|
| date | Fri, 14 Dec 2018 05:03:24 -0500 |
| parents | 2e9f7ea7ae93 |
| children | 7e570ba56b83 |
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Test_data number of tags per file 20 (from 20) against 20 Hamming distance separated by family size FS=1 FS=2 FS=3 FS=4 FS=5-10 FS>10 sum HD=1 5 1 1 1 1 0 9 HD=6 3 0 0 0 0 0 3 HD=7 4 0 0 0 1 0 5 HD=8 2 0 0 1 0 0 3 sum 14 1 1 2 2 0 20 Family size distribution separated by Hamming distance HD=1 HD=2 HD=3 HD=4 HD=5-8 HD>8 sum FS=1 5 0 0 0 9 0 14 FS=2 1 0 0 0 0 0 1 FS=3 1 0 0 0 0 0 1 FS=4 1 0 0 0 1 0 2 FS=6 1 0 0 0 0 0 1 FS=7 0 0 0 0 1 0 1 sum 9 0 0 0 11 0 20 max. family size: 7 absolute frequency: 1 relative frequency: 0.05 The hamming distances were calculated by comparing each half of all tags against the tag(s) with the minimum Hamming distance per half. It is possible that one tag can have the minimum HD from multiple tags, so the sample size in this calculation differs from the sample size entered by the user. actual number of tags with min HD = 171 (sample size by user = 20) length of one part of the tag = 12 Hamming distance of each half in the tag HD a HD b' HD b HD a' HD a+b sum HD=0 146 0 8 4 0 158 HD=1 0 2 2 21 11 36 HD=2 0 0 0 0 1 1 HD=5 0 0 4 0 0 4 HD=6 0 2 2 0 6 10 HD=7 0 16 9 0 21 46 HD=8 0 20 0 0 26 46 HD=9 0 50 0 0 50 100 HD=10 0 30 0 0 30 60 HD=11 0 18 0 0 18 36 HD=12 0 8 0 0 8 16 sum 146 146 25 25 171 513 Absolute delta Hamming distances within the tag FS=1 FS=2 FS=3 FS=4 FS=5-10 FS>10 sum diff=0 1 0 0 0 0 0 1 diff=1 6 1 2 1 1 0 11 diff=4 4 0 0 0 0 0 4 diff=5 2 0 0 0 0 0 2 diff=6 6 0 0 1 1 0 8 diff=7 15 0 1 0 3 0 19 diff=8 15 2 0 1 2 0 20 diff=9 37 4 1 4 4 0 50 diff=10 22 2 1 4 1 0 30 diff=11 8 1 1 5 3 0 18 diff=12 6 1 0 1 0 0 8 sum 122 11 6 17 15 0 171 Chimera analysis: relative delta Hamming distances FS=1 FS=2 FS=3 FS=4 FS=5-10 FS>10 sum diff=0.0 1 0 0 0 0 0 1 diff=0.7 6 0 0 0 0 0 6 diff=0.8 4 0 0 1 1 0 6 diff=1.0 111 11 6 16 14 0 158 sum 122 11 6 17 15 0 171 Chimeras: All tags were filtered: only those tags where at least one half is identical with the half of the min. tag are kept. So the hamming distance of the non-identical half is compared. Hamming distances of non-zero half FS=1 FS=2 FS=3 FS=4 FS=5-10 FS>10 sum HD=1 6 1 2 1 1 0 11 HD=6 2 0 0 0 0 0 2 HD=7 15 0 1 0 3 0 19 HD=8 15 2 0 1 2 0 20 HD=9 37 4 1 4 4 0 50 HD=10 22 2 1 4 1 0 30 HD=11 8 1 1 5 3 0 18 HD=12 6 1 0 1 0 0 8 sum 111 11 6 16 14 0 158