Marcel Schilling

Did you look for them by yourself? Something as simple as ```sh find / -ctime 0 -user $(whoami) 2>/dev/null | less -S ``` would show you all files belonging to...

@amanpatel101: The *shortest possible* FASTA record without ACGUT that results in `kallisto` reporting > 0 non-ACGUT characters upon indexing this single transcript would likely help to understand and fix the...

Is there any update on this? I have just finished running a large analysis learning just now at the last step that I need to start over with the filtering....

@warrenmcg: Can you confirm that the following is equivalent to your suggestion? ```R #[...] so

@Thyra: As far as I understand (didn't look at the paper or code in ages), this boils down to the way length normalization is done in kallisto: For PE data...

@Thyra: Sorry for the late reply. I usually have access to Bionalazyer profiles. You could contact the authors, they might have more data than available online. Or you take an...

@raybueno: Without a reproducible example I'm not sure I understand what is your issue but if I do my guess is as follows: You have a fragment length distribution that...

I'm neither a `sleuth` developer nor a `conda` user. But it seems your `DBI` package is outdated. Try running ```R update.packages() ``` or (if you use Bioconductor) ```R BiocInstaller::biocLite() ```...

@apcamargo: So if a gene comes up as significant because it switched the isoform while keeping the overall gene level constant, you'd like to get a 'significant' gene level fold-change...

@mutwil: > a) a certain number of reads have been processed This is already possible by feeding less reads (`head -n ` with ` = 4 * # reads you...