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Collaborators have asked if we could implement a module for performing differential analysis.
After speaking with Dan T., we believe that we can do so in the existing application without bogging t…
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**Description:**
When trying to resolve an AnnData matrix with multiple conditions (Ex: LPS treatments at 3 different timepoints), it does not allow these sort of multivariate comparisons.
Image o…
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### Ask away!
Hi,
In main.nf, input_reads is fed to differential_expression() and in differential_expression.nf the workflow differential_expression {} has full_len_reads defined. I've seen workfl…
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**Addition of Algorithm:**
My name is Matthew Marino. I am a CFDE GlyGEN summer intern working under Jeet Vora and Rene Ranzinger. I am currently trying to create multiomics workflows starting with…
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Hello,
I was using decoupleR for pathway analysis in single cell.
I tried a few lines:
```R
msigdb
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Do you know this bug? Confused since it seems to be basic snakemake-R interaction stuff, but one of the rules worked..
- Bug: setwd(snakemake@scriptdir) : cannot change working directory
- Rule de…
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Hi Mark,
I have a question. I am doing differential expression between two cell types in scRNA-seq, I tried scVI and it worked but diffxpy did not worked, it gives me this error: ZeroDivisionError:…
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Hello,
First of all, thank you for this tool. ALRA seems really convincing and is performing really fast. I wanted to ask few questions regarding the use of ALRA. Data I am using contains 6 sample…
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I get the below error when running on a HPC with 120 cores and 500GB RAM. I read that 137 relates to memory so I increased the allocation to 250G using the -c parameter and a mem.config file, as sugge…
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### Operating System
Windows 10
### Other Linux
_No response_
### Workflow Version
v1.2.1
### Workflow Execution
EPI2ME Desktop (Local)
### Other workflow execution
_No resp…