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Hi Brian,
I have been playing around with using PASA after genome-guided TRINITY assembly to refine gene structures. Overall the gene structures look fine, however for quiet a few genes the final out…
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hi
i am facing an error while running this pipeline https://github.com/trinityrnaseq/trinity_community_codebase/wiki/Trinity-best-transcript-set
```
cat keep_these | fastaselecth -sel- -in merge.fa…
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Dear authors,
Recently I was using your tool Mikado on my data. Below is my running commands:
mikado configure --list list.txt --reference genome.fa configuration.yaml
mikado prepare --json-con…
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@sjackman @suujia
`grep PERL *rb | grep env | sort | sed 's/^/* \[ \] /'`
* [x] abricate.rb: (bin/name).write_env_script("#{libexec}/bin/#{name}", :PERL5LIB => ENV["PERL5LIB"])
* [x] b…
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Hi, do you have may be a kind of box chart for funannotate pipeline? Smth like
![image](https://cloud.githubusercontent.com/assets/7625343/25372754/cb070c92-29ea-11e7-9036-597275aea349.png)
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Hi, I have used TransDecoder to translate a _de_ _novo_ assembled transcriptome. In TransDecoder.predict pipeline, redundant proteins are removed by clustering. Does anyone know the similarity cut of…
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Using the latest version 1.5.1
I ran Funannotate Train with RNAseq data and the resulting PASA 'bestmodel' output after Kallisto (attached) only contained genes with single exons for the fungal spe…
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[I got variable amplification results on qPCR](https://wordpress.com/post/genefish.wordpress.com/4891) (~~will update once posted~~), so the next steps to improve the amplification results would be:
…
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Hello,
I installed arcs meet the error which can not find gcc. I installed the gcc 6 with conda. The version should be good when I checked the log file.
I tried lots of times to install different ve…
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Hello,
When I run my degnorm script
```
#!/bin/bash
#script
export DATADIR=~/Desktop/Pv/result.degnorm
degnorm --bam-files $DATADIR/bams/PvD0.1.sorted.bam $DATADIR/bams/PvD48.1.sorted.bam -…