User: woojoy14

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woojoy140
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Posts by woojoy14

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Comment: C: RNA-seq with Salmon and tximport
... I wonder why I can only see Gene ID like ENSG00000000003.14 instead of transcript ID like ENST00000456328.2? ...
written 7 weeks ago by woojoy140
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Comment: C: RNA-seq with Salmon and tximport
... I ran the code below txi <- tximport(files, type = "salmon", txOut = TRUE, txIdCol = "Name", abundanceCol = "TPM", countsCol = "NumReads", lengthCol = "Length", importer = function(x) read_tsv(x, skip = 8), ignoreAfterBar = TRUE) and got the error as Error in tximport(files, type ...
written 7 weeks ago by woojoy140
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Comment: C: RNA-seq with Salmon and tximport
... Thank you for the help! I tried the code to parse with column specification and didn't get any results. How can I get it? ...
written 7 weeks ago by woojoy140
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RNA-seq with Salmon and tximport
... Hi! I'm trying to get the TPM matrix with the output of salmon. I've been following this tutorial: https://bioconductor.org/packages/release/bioc/vignettes/tximport/inst/doc/tximport.html#salmon-sailfish. I ran the code below and got the results of 'txi' which includes '"abundance" "cou ...
rna-seq salmon tximport written 7 weeks ago by woojoy140 • updated 7 weeks ago by James W. MacDonald51k

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