-
# OGS remapping and manual annotations
- [ ] request whole-genome alignment
- [ ] Set up data directories and get data
- [ ] run remap-gff3
# Change old content
- [ ] back up and deprecate ol…
-
Hi @hyphaltip,
Can you point me to your favorite RNA-Seq data to run against your test species (_Coccidioides immitis_) in the pipeline?:
https://github.com/biodataprog/RNASeq_template/blob/ecabfc…
-
### Description of feature
Hi from Lund!
We discussed Tomte today, and what would be needed for us to get it into production.
One thing that came up is that we would want a contamination check.…
-
Hi,
I am working with a very larger sc/sn RNA-Seq dataset. Starting from an h5ad file have used BPcells package to load data in-memory as follows:
`raw
-
I try to run the RNA-seq pipeline, but got this message:
```
Seq2science has trouble querying the assembly providers. Try again in a bit.
To see the error stack trace run seq2science with --debug…
-
To expand the MC2 data model, data type-specific metadata models should be assembled and reviewed by the community via the Request for Comments process. One strategy for implementing is as follows:
-…
-
For paired-ended RNA-seq, even it's much less than 200bp, do I still need to using the long-rna-seq-pipeline instead of the small-rna-seq-pipeline? Thanks.
-
I am running sortmerna via the nfcore rnaseq pipeline and I have seen that sortmerna fails sometimes as most likely it will require long run times (more than 16-20 hrs) and memory as well. I wanted to…
-
Hi,
CCPE is a useful tool to compute cell cycle pseudotime using single-cell RNA-seq data with ground truth. I also found that the paper described that CCPE could be used to analyze datasets without …
-
### Description of feature
Hi, I couldn't run the pipeline on some smart-seq datasets which contains only single-end fastq files. I tried with two different samplesheets and get an error that fastq_2…