User: oneillkza

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oneillkza60
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Posts by oneillkza

<prev • 7 results • page 1 of 1 • next >
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Answer: A: Is it possible to combine micro array data and RNA-Seq data and perform meta ana
... This is a bit old, but it came up as one of the top Google results for how to combine microarray and RNA-seq data in a meta-analysis. Anyway, in answer to the original question, this paper from August 2017 did exactly that: https://academic.oup.com/nar/article/45/17/9860/4084660 Note that they als ...
written 4 weeks ago by oneillkza60
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Answer: A: ChromHMM 15 State Descriptions (Genic Enhancer)
... If you look at the "GeneAnno" plot (ie genomic region annotations), "genic enhancers" occur more frequently in gene bodies, and occur in exons, while "enhancers" (state 7) occur less frequently in gene bodies and almost never in exons. Both seem to occur in introns with equal frequency. If you dig i ...
written 11 weeks ago by oneillkza60
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Comment: C: What's the best way to handle multi-file inputs in a CWL workflow?
... So it looks like what I'm asking for is also asked for in https://www.biostars.org/p/260090/ Michael has said that this is under development, but not yet implemented. ...
written 9 months ago by oneillkza60
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What's the best way to handle multi-file inputs in a CWL workflow?
... I have a scenario in which I'm working with hundreds of files at once, wanting to process them through two kinds of steps: 1. Within-file preprocessing (one file in, one file out). 2. Across-file analyses (e.g. clustering, ie many files in, one or a few files out). My question(s) are: a. Is there ...
cwl written 10 months ago by oneillkza60
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Comment: C: Phylogeny Based On Genome Rearrangement Pattern?
... It looks to me like that would convert quite well to a binary matrix, with columns for genome regions, rows for species (or individuals), and each entry containing {1,0} to denote presence or absence of that region? ...
written 4.6 years ago by oneillkza60
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Answer: A: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
... I'll take the Wikipedia definition of epigenetics: "In biology, and specifically genetics, epigenetics is the study of changes in gene expression or cellular phenotype, caused by mechanisms other than changes in the underlying DNA sequence" So are you suggesting that Biostars should cease to hold d ...
written 4.7 years ago by oneillkza60
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Comment: C: Phylogeny Based On Genome Rearrangement Pattern?
... It's maybe a little off-base, but there was a paper at ISMB last month which did something similar, but using FISH copy number data, and reconstructing human cancer phylogenies. More importantly, they built quite a specialised and highly efficient piece of software to do just that. I wonder if your ...
written 4.7 years ago by oneillkza60

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Teacher 4.7 years ago, created an answer with at least 3 up-votes. For A: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?

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