User: rependo

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rependo10
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1 month, 3 weeks ago
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2 years ago
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Posts by rependo

<prev • 5 results • page 1 of 1 • next >
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Impact of RNAseq read length on non-reference genome alignment
... Hi all, I'm trying to get a sense for whether or not read length has an impact on alignment success when mapping to a non-reference/congener genome. I'm conducting a large, multi-species RNAseq experiment and we have an annotated genome for one focal species in the study; the plan is to align reads ...
alignment rna-seq written 9 weeks ago by rependo10
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Comment: C: How do I load a peak file in ChIPseeker?
... Maybe consider not providing a reply if sarcasm is the best you can manage. ...
written 5 months ago by rependo10
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Comment: C: Need to systematically identify genes within some distance of a response element
... I'm figuring it out as I go, but ideally the output would be a .txt, with columns defined as: 1.) Gene (one per line): all genes located within 100kb of a response element identified in the input 2.) Strand 3.) Gene start position 4.) Gene strand 5.) Response element start position 6.) Response ele ...
written 2.0 years ago by rependo10
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Comment: C: Need to systematically identify genes within some distance of a response element
... Awesome -- thank you, Alex. ...
written 2.0 years ago by rependo10
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Need to systematically identify genes within some distance of a response element in the genome
... I'm trying to find a program or script that can be used to systematically return a list of genes in the genome that fall within some specified distance of a response element. I have two files to work with: 1.) A list of predicted response elements in the genome, identified using PoSSuM-search, that ...
genome gene rna-seq written 2.1 years ago by rependo10 • updated 2.0 years ago by Alex Reynolds31k

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