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**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 …
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Genome based transcriptome assemblers like Cuflinks produce large no of transfrags. Are these real? if not, they are likely to impair differential expression analysis of isoforms adding more confusion…
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Hello,
I apologize if a similar issue has been posted elsewhere, but I did not find one when I searched.
I am trying to annotate a new reference genome (a marine fish; assembly is near-chromosom…
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Good morning 😊
I am opening this issue on the recommendation of @rob-p and our discussion over on BioStar (https://www.biostars.org/p/486346/#486637).
I was using STAR to index and align my raw r…
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Hello,
I was recently depositing some transcriptome assemblies in NCBI and they flagged the presence of Illumina TrueSeqDNA HT and RNA H7 i7 index D711 adapter (or D708) in some of the transcripts.…
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Hi everyone,
I am trying to analyze some transcriptome assembly I created via Trinity. Considering the final nucleotide sequence is called .cds, does transcdecoder exclude introns? Because I am loo…
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Hello,
I am trying to create index for "Homo_sapiens.GRCh38.dna.primary_assembly.fa" from Ensembl. I installed Kallisto using conda (kallisto 0.48.0) and tried to index using `kallisto index -i Homo_…
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### Operating System
Windows 10
### Other Linux
_No response_
### Workflow Version
v1.2.1
### Workflow Execution
EPI2ME Desktop (Local)
### Other workflow execution
_No resp…
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Dear Nanoporetech,
I am having an issue running this. I have altered the config.yaml (pasted below). I read an another issue that full paths were required so I added these, but have removed identi…