-
Hi pySCENIC team,
Thank you for providing a great tool. I am running pyscenic using my original zebrafish data. However, I got an empty file output (reg.csv) from `pyscenic ctx`, which is a ve…
-
Hello,
I have started going through the documents to generate the required files to align Drop-seq data, but when using ConvertToRefFlat the output file generated is empty.
There is also no erro…
-
Hi!
I wrote a [quick-and-dirty script (`orthogroup_to_gene_name.py`)](https://github.com/MrTomRod/orthofinder-tools) that takes `Orthogroups.tsv` and turns it into `Orthogroup_BestNames.tsv`. This …
-
Ensembl 110 was [released](https://www.ensembl.info/2023/07/17/ensembl-110-has-been-released/) on 2023-07-17 and includes a note:
> human genome assembly has been updated to the latest patch relea…
-
Based on @harryhoch's mockups, I started the redesign. The first thing I did was to clean up the page and related code. I also rephrased the section titles as you can see from the second image. In sec…
-
The logic for querying, adding, and handling taxonomic information from WoRMS exists since March 2023 via [`update_taxa.py`](https://github.com/bruvellu/cifonauta/blob/develop/meta/management/commands…
-
Hi,
I was running halPhyloPMP.py， the command is
halPhyloPMP.py --numProc 100 ../504_way.fish.hal Danio_rerio ../step2/all.mod pick.Danio.wig --targetGenomes Arapaima_gigas,Scleropages_formosus,Meg…
-
Hi
Thank you for this amazing package and all the details given in the ribosomeprofilingQC guide. I just would like to clarify the construct of makeTxDbFromGFF to provide to readsEndPlot().
I us…
-
### A clear and concise description of what the bug is.
I assumed that for most species, if not all, there would be a single source, and a more or less standard format...
What differences there …
-
Hello BPCells maintainers,
On line 26 of trackplots.R, the parameter legend.title.position has been deprecated in ggplot2 3.5.0: https://github.com/tidyverse/ggplot2/blob/fc62903c76d736510dbed24a3…