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Hi, I've tested the [Kallisto-Quant.cwl](https://github.com/common-workflow-library/bio-cwl-tools/blob/release/Kallisto/Kallisto-Quant.cwl) with
```yaml
InputReads:
- class: File
path…
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Hi,
I am running into an error with `funannotate update`, trying to add UTRs to existing CDS annotations. It looks like it is an issue with `Kallisto` finding duplicate fasta header names in `update…
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Hello,
I was wondering if it is more appropriate to use the v1 standard kallisto index https://github.com/pachterlab/kallisto-transcriptome-indices/releases for bulk RNA seq data compared to an ind…
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R code:
```
#for lung multirigional
setwd("/Users/testaccount/Dropbox/DIFFERENT/LUNG_MATCHR/LUAD_TCGA")
a=read.delim("/Users/testaccount/Documents/CANCER_support/LUAD_MATCHR/LUAD_TCGA/transcrip…
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Dear Laura,
There is a discrepancy between the gene count and transcript count from the count matrices generated by Kallisto. I generated the gene count matrix and tcc matrix from the same set of f…
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Hello Kallisto developer,
Thank you for this excellent tool. I would like to know if Kallisto works on Parsebio split-pool snRNA-seq, which I have heard the rumor for quite a while. If you can kind…
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Hi,
@warrenmcg's advice in Issue #201 to subset files (below) does not work for me
> kal
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`std_cmake_args` used to be a pretty static list of arguments, but by now it is dynamic and expensive to compute correctly. I'd like to get rid of it and ensure CMAKE_INSTALL_RPATH argument is compute…
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Hi I am getting the following error
I build the index with the kallisto provided with kallisto-align and also installing it with conda on a separate environment. On both cases a get the following err…
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Hi Dr. Zhang,
I am trying the following commend to run DARTS:
` Darts_DNN build_feature -i bayes_infer/A5SS.darts_bht.flat.txt -c ~/.darts/DNN/v0.1.0/trainedParam/A5SS-trainedParam-EncodeRoadmap…