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### Description of the bug
Hi!
I'm running the pipeline with the following pipeline:
```
nextflow run nf-core/circdna \
-r 1.0.4 \
-profile docker \
-resume \
--max_cpus 9 \
--max_memory …
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When I submitted a mutation:
NM_001164277:c.925_928delinsTC
to Transvar
with these options:
Reverse annotation cDNA, GRCh37, RefSeq
I got "p.G309Sfs*3" and "chr11:g.118896734_118896737d…
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@ambj god, you are here, I am urgent for your help. no version of vep has the variant_effect_predictor.pl and variant_effect_predictor, what should i do, help, **really very urgent**.
[image](https:…
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Both VEP and ANNOVAR mark start losses but include the information regarding changes in the coding sequence and aminoacids.
For instance, the json from VEP with variant `chr10 58224929 A G`:
```
{
…
joaoe updated
5 years ago
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Ensembl datasets: from the old Ensembl releases (< 43) -for which no GTF is available- parse GenBank files to retrieve gene/transcripts/exons information and store the annotations in GTF format.
Data…
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I've made a docker container for SalmonTools https://quay.io/repository/comp-bio-aging/salmon-tools
However, I constantly get:
/opt/SalmonTools/scripts/generateDecoyTranscriptome.sh: line 105: …
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Hi. Dr. Thomas Bradley,
I found your paper, FilTar: using RNA-Seq data to improve microRNA target prediction accuracy in animals, and your program really fit into my project.
On the first attemp…
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Add a plot which lets you view the
y: proportion of cDNA (alternatively the RPKM)
x: gDNA
fit a regression line across and find things which are 2 SDs away from the regression
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Hi,
I am trying to run an amplicon-based (not WTA; targeted panel) BD Rhapsody scRNA-seq data using kallisto/kallistobustools. However, I can see that only BDWTA is supported.
I used the cDNA …
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Hi, I use your data (dna_rep1_sqklsk108_flipflop, dna_rep2_sqklsk109_flipflop) to test the ployA/ployT for DNA. But I am confued whta is the correct end_primer and front_primer.
In your paper Table…