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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…
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Hello,
I conducted DEG analysis from Trinity assembly out file (denovo assembly).
And now I had a chance to sequence DNA with pacbio.
Thus, I run a denovo assembly with pacbio and gene predicti…
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Hi,
I am currently working on using bookend together with flair to generate transcriptomes of multiple samples and I am having a weird issue. For some samples, my bookend assemblies are way smaller t…
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Hi,
`damit annotate` completed ok to annotate 4 transcriptome assemblies but always failed for the other 2 transcriptomes. All 6 inputs were assembled using the same tool and in the same format (fa…
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The rnaSpades mode is heavily focused on mRNA transcriptome assembly and is very aggressive at splicing assemblies into short transcripts. The —meta mode would be more suitable for our DNA/RNA assembl…
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**Hello, I'm a first-year master's student, and I'm attempting to use STAR to index the mouse genome. I'm using the following command:**
import os
import subprocess
class STAR:
def __ini…
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Hi again,
For Braker1, I had been providing BAM files produced by STAR.
Since you are now using StringTie assembly as part of the Braker pipeline, I was wondering if there are any notable perfo…
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Hello,
I am trying to use Trinity to assemble a pan-transcriptome for my 150 samples (3 replicates for 50 genotypes). After mapping them individually to genome through STAR, I got 150 bam files. Th…
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Hi friends!
I runned metaWRAP quant_bins without any errors, but I entered 808 bins and ended up with only 7 bins in bin_abundance_table.tab, I don't know why, and hope you can answer, thank you v…
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There are actually two public transcritomes.
1. De novo transcriptome assembly and analysis of differential gene expression in response to drought in European beech
Raw sequence reads were submitt…