User: gayachit

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gayachit0
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Posts by gayachit

<prev • 8 results • page 1 of 1 • next >
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Comment: C: Trouble with transcriptome data
... -Q33 didn't work. I tried that earlier... But thanks anyway ...
written 2.0 years ago by gayachit0
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Comment: C: Trouble with transcriptome data
... Thanks gangreddy Those bases were at the end of my file. So i removed them ...
written 2.0 years ago by gayachit0
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Trouble with transcriptome data
... Hi everyone I have 14 Gb of transcriptome data of a plant sequences using Ion Proton. Initially I ran a quality assessment tool for checking it and there are a lot of overrepresented sequence probably rRNA. When I try to use fastq_quality_filter to remove low quality bases it gives me an error "In ...
ion proton next-gen rna-seq written 2.0 years ago by gayachit0 • updated 2.0 years ago by b.nota6.4k
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Comment: C: Need Help with RNA secondary structure folding
... No issues!!Found a solution ...
written 2.3 years ago by gayachit0
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Need Help with RNA secondary structure folding
... Hi all I am working with screening of miRNA where in I have the precursor sequences extracted in a single multifasta file. Now i need to check the secondary structure folding of these sequences. I read that mfold was one of the most used. However, mfold does not take multifasta sequence file. So th ...
rna sequence mfold written 2.3 years ago by gayachit0
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Comment: C: Do we need to estimate effective transcriptome size before sequencing?
... Thanks for the information carlo... ...
written 2.7 years ago by gayachit0
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Do we need to estimate effective transcriptome size before sequencing?
... Hello everyone We are thinking of doing whole transcriptome of some plants. I need to know do we need to have an estimate of the effective size of the transcriptome so that we know how much data coverage we need?? If yes, then how to do that? What are the pre-requisite things one should know before ...
rna-seq written 2.7 years ago by gayachit0 • updated 2.7 years ago by Carlo Yague4.4k
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How to run Genscan on large files
... Hi all, I am currently working on an assembled eukaryotic genome. The file size is 2.5 GB. I have read that people use genscan for de-novo gene prediction. Currently i am unable to figure out how as genscan does not work well with multifasta and large files. I need to produce a .gff file. I used a ...
gene software error forum next-gen genome written 4.7 years ago by gayachit0 • updated 4.0 years ago by Biostar ♦♦ 20

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