Mercurial > repos > vipints > fml_mergeloci
comparison fml_gff_groomer/t/Feature_ID_mapping_W.txt @ 0:79726c328621 default tip
Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
| author | vipints |
|---|---|
| date | Tue, 07 Jun 2011 17:29:24 -0400 |
| parents | |
| children |
comparison
equal
deleted
inserted
replaced
| -1:000000000000 | 0:79726c328621 |
|---|---|
| 1 ------------------------------------------------------- | |
| 2 GFFExamine started on Mon Apr 18 13:17:17 2011 | |
| 3 ------------------------------------------------------- | |
| 4 | |
| 5 ===Report on different level features from GFF file=== | |
| 6 | |
| 7 FIRST level feature(s): | |
| 8 ('Coding_transcript', 'gene') | |
| 9 | |
| 10 SECOND level feature(s): | |
| 11 ('Coding_transcript', 'mRNA') | |
| 12 | |
| 13 THIRD level feature(s): | |
| 14 ('Coding_transcript', 'CDS'), ('Coding_transcript', 'five_prime_UTR'), ('Coding_transcript', 'three_prime_UTR') | |
| 15 | |
| 16 GFF Parsing modules from publicly available packages like Bio-python, Bio-perl etc. are heavily dependent on feature identifier mapping. | |
| 17 Here few features seems to be wrongly mapped to its child, which inturn cause problems while extracting the annotation based on feature identifier. | |
| 18 | |
| 19 Error in ID mapping: Level1 feature ('Coding_transcript', 'gene') maps to Level3 feature ('Coding_transcript', 'exon') | |
| 20 Error in ID mapping: Level1 feature ('Coding_transcript', 'gene') maps to Level3 feature ('Coding_transcript', 'intron') | |
| 21 ------------------------------------------------------- | |
| 22 GFFExamine finished at Mon Apr 18 13:17:17 2011 | |
| 23 ------------------------------------------------------- |