User: felipead66
felipead66 • 70
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Posts by felipead66
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... I am building a database linked to a webpage and I want to include blast searches.
Do I have to use blast API for that? ...
written 7 weeks ago by
felipead66 • 70
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... I have a list of genes and the corresponding GO terms for a non-model organism. Could I calculate enrichment factor from the list of GO terms? ...
written 6 months ago by
felipead66 • 70
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... Write first the command on how you imported the data ...
written 6 months ago by
felipead66 • 70
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... When I have RNA seq data, analyzed with DESEq2, is it necessary to do violin plots in order to check the distribution and intensities of the libraries? ...
written 6 months ago by
felipead66 • 70
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... I have human rna-seq data and I use the tophat/samtools/htseq pipeline to produce the count table.
My problem is that a particular gene, does not appear in the final count table, although it appears on the .gtf file.
What could be the reason for that?
Shouldn't all genes in the .gtf file appear in t ...
written 7 months ago by
felipead66 • 70
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... I apologize for the silly question, but how do I find the library size of rna seq data if I have the count table?
The count table was created using htseq.
Is it just the sum of the counts of genes? ...
written 10 months ago by
felipead66 • 70
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... I thought so. Thank you very much for your answer. ...
written 11 months ago by
felipead66 • 70
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... I have vcf files for various cultivars. Can I calculate linkage disequilibrium from a vcf file of only one cultivar or should I group them somehow? ...
written 11 months ago by
felipead66 • 70
• updated
11 months ago by
chrchang523 ♦ 7.4k
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Answer:
A: lumpy for cnv detection
... Thank you for your reply.
Are you aware of any R packages that can process lumpy and svtyper output? ...
written 11 months ago by
felipead66 • 70
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... I have 14 plant cultivars and I want to find cnvs against a wild type.
I am using lumpy express for each cultivar separately and I get the corresponding .vcf file. My problem is that I do not know what to do next, how to proceed. Any ideas? ...
written 11 months ago by
felipead66 • 70
Latest awards to felipead66
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6 months ago,
created a post with more than 5 votes.
For VariantFiltration warning "undefined variable"
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6 months ago,
created a question with more than 1,000 views.
For VariantFiltration warning "undefined variable"
Popular Question
14 months ago,
created a question with more than 1,000 views.
For Bio-DB-HTS installation and ensembl-vep
Student
14 months ago,
asked a question with at least 3 up-votes.
For VariantFiltration warning "undefined variable"
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