User: Casual

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Casual90
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7 years, 7 months ago
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7 years, 9 months ago
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Posts by Casual

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Comment: C: Bwa Sampe Very Large Insert Size
... When the alignment not finished yet,how can we plot the insert size distribution? I'm curious,and humbled for your teaching~ ...
written 7.6 years ago by Casual90
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Comment: C: Perl Module For Parsing Ensembl Annotation Flat File
... It's interesting this module not in the CPAN or BioPerl project? Only could be found at Ensembl~ ...
written 7.6 years ago by Casual90
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Comment: C: Help For Usage Of Gene2Pathways(R Package For Kegg)
... Michael,Sorry I didn't quite follow U.What's your recommendation?A new package?or...? ...
written 7.6 years ago by Casual90
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Comment: C: Help For Usage Of Gene2Pathways(R Package For Kegg)
... Why the output format is so wired? It's fine when I was typing~ ...
written 7.6 years ago by Casual90
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Help For Usage Of Gene2Pathways(R Package For Kegg)
... Hi~ I have batch of differentially expressed genes/transcripts ID & sequence from A Non-Model organism. I wanted to align these genes/transcripts to KEGG pathways to find the most possible pathways being triggered. After some searching work, I got the gene2pathways package might do this job~ Bu ...
R non kegg written 7.6 years ago by Casual90 • updated 6.2 years ago by Biostar ♦♦ 20
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Comment: C: Perl Module For Parsing Ensembl Annotation Flat File
... Thank you! These links really helped me. Although I didn't succeed in parsing ensembl format annotaion file (I'm confused about which part is feature and which is tag), I finally got job done by downloading Genbank format annotation file, and wrote a BioPerl script for this.It's much easier~~ ...
written 7.7 years ago by Casual90
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Comment: C: Perl Module For Parsing Ensembl Annotation Flat File
... I know BioPerl, and did lots of search at CPAN~ ...
written 7.7 years ago by Casual90
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Perl Module For Parsing Ensembl Annotation Flat File
... Hi there~ Now I got batch of gene IDs,and downloaded the annotation flat files from Ensembl (same specie ,of course). I wanna extract the description (briefly introduction for gene function) in the annotation file for each one of the IDs. Could anyone suggest a Perl module to do this job? Or other s ...
ensembl annotation written 7.7 years ago by Casual90 • updated 7.7 years ago by Javier Herrero290
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Answer: A: Interpro Enrichment - Any Organism
... I just found this one ,http://wego.genomics.org.cn/cgi-bin/wego/index.pl ,WEGO by BGI in China. It can accept interpro scan results(raw ,xml,txt) as input. ...
written 7.7 years ago by Casual90 • updated 8 weeks ago by RamRS24k
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Answer: A: Whole Transcriptome Analysis - Two Very Basic Questions For Differential Express
... 1 ,If the transcript exp_level was not too low, which means to have enough depth, It will be hardly impossible to miss that. But there always are some extremely low abundance transcript. So,yes,we got false negative now.But in transcriptome study,I believe it's only in minimum proportion, and will n ...
written 7.7 years ago by Casual90

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