About fake reads
From CSBLwiki
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http://standardsingenomics.org/index.php/sigen/article/view/sigs.952166/237 | http://standardsingenomics.org/index.php/sigen/article/view/sigs.952166/237 | ||
- | 위 논문에서 fake reads | + | 위 논문에서 fake reads |
- | from 454 : consed 옵션으로 나온 폴더에 포함 (.ace 파일, phd파일) | + | from 454 : consed 옵션으로 나온 폴더에 포함 (.ace 파일, phd파일) |
- | from velvet : | + | from velvet : |
Revision as of 00:52, 12 July 2010
http://standardsingenomics.org/index.php/sigen/article/view/sigs.952166/237
위 논문에서 fake reads from 454 : consed 옵션으로 나온 폴더에 포함 (.ace 파일, phd파일) from velvet :
3.40) FAKE READS
By "fake reads" I mean reads such as those created from a Genbank
reference sequence or a consensus from some other assembly... or others
for which there is no chromatogram (and there never was any
chromatogram). If you don't use any such reads, you can skip this
step.
In the past, any read that ended with a .a2 or .c3 (where 2 and 3
could be any numbers), was considered a fake read. Now you can make
Autofinish not assume this using the .consedrc parameter (see CONSED
CUSTOMIZATION):
consed.fakeReadsSpecifiedByFilenameExtension: false
Instead, you must have determineReadTypes.perl put "fake" into the
"type:" field of a "template" WR item. See determineReadTypes.perl for
more information.