User: sf.rocha

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sf.rocha0
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Posts by sf.rocha

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DeSeq Output results file: only one log2(FC) column but 4 treatments?
... Hi, I'm trying to analyse RNAseq data from 4 samples (control, treatment A, treatment B, treatment C) and I don't really understand the information that is provided in the results output file: GeneID Base mean log2(FC) StdErr Wald-Stats P-value P-adj These are the columns that are on the file... ...
deseq written 6 days ago by sf.rocha0 • updated 1 day ago by Jennifer Hillman Jackson25k
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StringTie and StringTie merge - when to apply the Guide gff (reference annotation file)?
... I'm new to StringTie and I've been trying following the "Finding and quantifying new transcripts" at https://galaxyproject.org/tutorials/nt_rnaseq/. It is not clear to me why it is recommended to only use a guide gff file when merging the StringTie data from all individual samples? What is the diffe ...
ref_seq stringtie stringtie merge written 6 days ago by sf.rocha0 • updated 6 days ago by Jennifer Hillman Jackson25k
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Answer: A: Get multimapped reads from STAR in Galaxy.
... I'm having issues with using the NGS: BamTools > Filter BAM datasets on a variety of attributes. I'm using as input a BAM file obtained with HISAT2 and I want to filter for only the reads that have only 1 mapping hit. For this I filtered on: Select BAM property to filter on > tag Filter on a p ...
written 6 days ago by sf.rocha0

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