-
I'm reaching out regarding an issue I encountered while using RNA-bloom version 2.0.1 in conjunction with JDK17. Specifically, I'm attempting to generate a de novo assembly using 32 samples of transcr…
-
These organism either do not have a link to Jbrowse or need Jbrowse done for them.
- [x] Acer saccharum - Transcriptome Assembly
- [x] Alnus rhombifolia - Transcriptome Assembly
- [x] Alnus rubra…
-
Dear Geo,
I had different assembled transcriptomes depending by the usage of STAR or HISAT2 with the latest version of stringtie. You can see a screenshot of a region I am interested in.
![strti…
-
OGS v1.2 is here: https://i5k.nal.usda.gov/bio_data/836678
The community wants to review these assemblies, and having the OGS on each haplotype will likely help. The OGS will need to be remapped fi…
-
Hi,
Thanks for the useful tool.
I am currently uncertain about the optimal type of transcriptome files to provide for my study. I am considering two approaches: directly using StringTie/Trinity fo…
-
Hi,
We have a de novo trinity assembly from RNAseq data and also pacbio isoseq assembly. But we do not have the genome.
Can we combine these two to build a comprehensive transcriptome??
Thank…
-
**Are you using the latest release?**
Yes
**Describe the bug**
I have switched to mysql from sqlite because sqlite takes so long to run. Train keeps failing at the PASA step, due to an inability …
-
Add option to cluster redundant sequences in the assembled proteome using [CD-HIT](https://sites.google.com/view/cd-hit). E.g., `cd-hit -c 1.00` clusters 100% identical sequences, which are likely ass…
-
Dear there,
I see CLASS is genome-guided transcriptome assembly. What is the meaning of that? My question is CLASS a de novo assembler or annotation-based methods?
If it is annotation-based met…
-
### Operating System
macOS
### Other Linux
_No response_
### Workflow Version
v1.1.1-g999fb4e
### Workflow Execution
Command line
### EPI2ME Version
_No response_
### CLI command run
./next…