-
GanttStart: 2022-03-29
### Background
Transformed at high efficiency using Bloom lab's liquid recovery protocol: https://github.com/rasilab/rqc_aggregation_aging/issues/98
Library prepped: https://g…
-
### Description of the bug
```
tail -n 500 -f /hps/nobackup/juan/pride/reanalysis/proteogenomics/PXD010154/work/b6/6e37bc1f0f149a2785a8bd4d3968ab/out_17_sage.log
Found Sage version string: Version…
-
Hello!
I'm testing vRhyme and got stuck after 'Performing machine learning classification' step
Running on a slurm HPC system
Fresh mamba install
Inputs :
a) Single-end Next-seq reads;
b) vir…
-
I would like to calculate the dN and dS between two sequences, to do so I had to make a codon alignment such like that:
(*Peter: I adjusted the formatting and added the missing import lines*)
`…
-
In [rna-seq.tex](https://github.com/klmr/thesis/blob/master/rna-seq.tex) you have excellent discussion of various aspects of expression quantification. I think there are some missing pieces:
- Given t…
-
hey, testing the package on Alexaki et al 2019 (human Ribo-seq)
Got an error I think is a bug, because I use a sparse bam file (2 Million reads only):
```
./RiboNT --gtf /media/roler/S/data/Bio…
-
Im trying to convert a gff file into gff so that it could be fed into the HISAT2, StringTie, ballgown pipeline. I have installed gffread and manage to see output after ./gffread -h.
However, when t…
-
### Contribution guidelines
- [X] I've read the [contribution guidelines](https://github.com/squidfunk/mkdocs-material/blob/master/CONTRIBUTING.md) and wholeheartedly agree
### I've found a bug and …
-
The following depositories must be added to DINA. I believe these were originally extracted from the following website, but we have since expanded the list to make the CNC DB more comprehensive: http:…
-
The Empirical Homoresidue model (scatter column furthest right) for high- and middle-fitness values exhibits some unexpectedly extreme dN/dS values. Check out the sampled sequences from those points …