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nichenet_output_agnostic
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Hello !
I'm new to using this tool. After using the command., An exception keeps raising. Kindly look into it.
This is the command used.
python3 seekCRIT.py -o AC16_PEtest -t PE -fa /STORAGE/softwa…
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Hello,
I am trying to use SCnorm to normalize bulk RNA-seq data. I have about 10 studies with differing numbers of samples. I removed any genes that have no counts in any samples. I then used the a…
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Well explained tool for Single-cell RNA seq data normalisation !
Hi,
So we are normalising the Single-cell RNA seq data and we now have to normalise the allelic read counts. Scnorm seems to b…
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I tried to run the Identify_Markers command, but the following error has occurred.
> hs_marker
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Hello, Teacher Guo,
I didn't find the section for submitting questions in your github, so I posted it here (https://github.com/ZhangLabSZ/RES-Scanner2/issues/). I didn't choose the original transcrip…
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Hi yang,
Here are two quick question: 1) if we want to merge multiple sample of AS single cell data, what strategy do you recommend to use to remove batch effect? 2) the RNA velocity analysis …
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There is some weird behaviour when using a `SingleCellExperiment` with one cell. Firstly, note that we have *two* `.cell` columns in the second example, and both of them become part of the full coldat…
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I ran one of the Jisc S3 research datasets (10.1021/acs.jctc.5b00728) through Miguel's QA env. It contains a 1GB tar file that gets unpacked into a set of .gz files. During the ingest phase of th…
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Hi tseemann,
Thanks for the great tool. I am experiencing an issue with validating files for submission to ENA after conversion with EMBLmyGFF3 which seems to be related to an issue in the output g…