Jon Palmer
Jon Palmer
It seems there is a way to delete samples from a uri/database via the CLI, ie `tiledbvcf delete`. I'm getting an error when I try this and need help understanding...
Seems there is a bug in the bed output from `modkit pileup`: ``` $ modkit --version mod_kit 0.1.12 ``` ``` $ modkit pileup -n 4 --preset traditional -r ref.fasta methylated.ref.sorted.bam...
Seems like the upgrade in torch has then lost support on our RockyLinux system due to GLIB dependencies. I grabbed the package like this: ``` $ wget https://cdn.oxfordnanoportal.com/software/analysis/dorado-0.9.5-linux-x64.tar.gz $ tar...
Looks like you are explicitly not writing IDs for CDS features? Why?? This goes against the GFF3 spec, CDS from the same mRNA feature should have the same ID. https://github.com/Kuanhao-Chao/LiftOn/blob/e07f41a979f6517c7faebcbdf0fb94c970afb33a/lifton/liftoff/write_new_gff.py#L100-L113...
We do our base calling remotely and standardized for all datasets and then store FASTQ files for subsequent downstream analysis. Currently we have been using `medaka` for error correction but...