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Hi Brian,
I followed the steps, but failed at the final step:
`~/miniconda3/opt/transdecoder/util/cdna_alignment_orf_to_genome_orf.pl transcripts.fasta.transdecoder.gff3 transcripts.gff3 transcript…
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A lot of the times when we are assessing our samples before we move on to fragmenting cDNA in to fragments, we look at the distribution of full length cDNA using a Bioanalyzer.
See for example panel …
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When converting c. HGVS from cDNA to genome coordinates, VEP appears to not take into account alignment gaps, where the cDNA has insertions/deletions vs the reference sequence.
Submission example:
…
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Hi! By running the following command:
nextflow run mop_preprocess.nf -with-docker -bg --fast5 " " --fastq files "/home/MOP2/mop_preprocess/fastq/ " --reference "Homo_sapiens.GRCh37.cdna.fa" --annot…
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Hello! I encountered the following error. I tried to check the source code but I can't locate where the function is because there is no file called 'oligo_filter.py'. What's the possible cause of this…
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Hi team,
We are trying to use your API to convert cDNA sequenced to genomic positions: https://v3.mutalyzer.nl/positionconverter?referenceId=NM_000334.4&fromSelectorId&fromCoordinateSystem=c&posit…
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Hi,
When I run DNBC4tools via singularity, I got an error like this:
```
The chemistry(darkreaction) automatically determined in cDNA : darkreaction
The chemistry(darkreaction) automatically d…
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Dear all,
I'm still quite a newbie to phyloseq and R, currently I'm struggling with the issue that I can't structure my heatmap (see picture attached) in the way I want it. The issue is that I want t…
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I am getting the following error when running fusion snakemake.
```
rule loose_fusions: …
f0t1h updated
2 years ago
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The BRCA2 variants that I found that had Hg38 Start and End coordinates that did not match with the pyhgvs_cDNA were c.71delT (Hg38_Start=32319077 and Hg38_End=32319078 which correspond to c.68 and c.…