Simon Andrews
Simon Andrews
On our system we're using the newer [Lmod](https://lmod.readthedocs.io/en/latest/index.html) environment module system rather than the original environment modules. LMod is syntactically and API compatible with environment modules, but uses different back...
There's a mismatched bracket which stops the actual command and other relevant things being added to the SLURM submit if the custom command is used.
``` ====================================================================== Cluster Flow Pipeline: samtools_sort_index Submitted: 20 minutes, 5 seconds ago Working Directory: /bi/group/bioinf/Rachael_Huntly/Cufflinks_Analysis/Rachel_0_vs_8_hour Cluster Flow ID: samtools_sort_index_1485260139 Submitted Jobs: 17 Running Jobs: 8 Queued Jobs: 11 (resources) Completed...
This shouldn't break anything and will mean that the code stands a chance of working on Macs which have a version of zcat which only works if the file name...
In the results we're getting the Term column picking up the URL for the term in MSigDB which isn't all that helpful. Can we look at the parser and see...
For splice junction quantitation, especially on platforms such as ONT it would be really useful to have a bit of flexibility in how closely the end points matched the probe...
The EdgeR for/rev plot doesn't let you look at the results in a volcano plot. It doesn't think this is a valid gene list for that purpose. In principle we...
The EdgeR R code will fail if given a dataset where a probe has zero counts through all samples in a replicate set. ``` > edger.data robust=TRUE) Error in loglik...
That's what we always use anyway!
This is a placeholder issue to track any issues which arise from the recent release of ARM (M1) based Mac systems. We've had some initial reports back from owners of...