-
Hello dear author, I noticed that the parameters used when gene counting with FeatureCounts are "-M" and "--primary", in the final result I got some key genes are pseudogenes, which makes me have to l…
-
Thank you for making Fishpond! I have been using the loadFry function to aggregate USA counts produced by Alevin Fry (adding up U+S+A). I would have expected that the summarised counts table would hav…
-
**Describe the bug**
When I update to the latest version, I use the same command to run the species identification, it will directly report an error. However, when I run the main program, it works.
…
-
Hi
I've been reading and working through various tutorials and bits of documentation, and have found the `alevinQC` package very helpful for understanding what is going on with the `generate-permit…
-
**Describe the bug**
pyrodigal does not work:
```
[ERROR: Pyrodigal could not be executed! Please make sure Pyrodigal is installed and executable or skip requiring workflow steps via via '--skip-c…
-
I've just noticed that we don't include annotation for pseudogenes in the GPAD file we created for GO. The pseudogenes are in the GPI file though.
I don't know why I implemented that way. I thoug…
-
Dear @panchyni @shinhanshiu
Hello there! This is a very good tool that suits my needs very well and I look forward to referencing it later. I'm having a RepeatMasker problem while running the test…
-
Good morning - Pseudofinder is a great program.
I'm trying to run Pseudofinder using the refseq_protein BLAST database that was downloaded using:
`update_blastdb.pl --decompress --num_threads 40…
-
Hello,
this is a great idea, been looking to try something like this and looked like the T cell people were more advanced.
Have a couple of questions:
- I already have an SCE object with integrat…
-
Firstly, thanks for developing this awesome bit of software, it's exactly what I needed for the analysis I've been doing, and has been an absolute lifesaver.
With that being said, I have recently …