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Dear JAFFA Developers,
during the last couple of days I tried to solve an issue I'm experiencing running JAFFA (direct mode).
Since I'm writing here, I've not been able to solve the problem by my…
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Currently we don't differentiate between genes and proteins, we just lump them all under gene. However, most go annotation is at the protein level. When we have a go annotation, and we ask quickgo …
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Hi,
I'm try to run a first test with my own data. It's about 3 very closely related genomes, already aligned with Cactus. I'm preparing the configuration file following the instruction. I have a bu…
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Different track types need histograms generally because otherwise it incurs too much data downloading
- NCList
- BAM
- Tabix
If we don't have this or can't get valid estimated feature densitie…
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Hello,
I'm very interested in using kallisto as the alignment engine for some non-standard analyses using 10x data. I'd like to use kallisto to perform the pseudoalignments against custom reference…
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Hello @reece,
Following issue #569, I was wondering whether you had any news regarding the work of incorporating other genome references into UTA then using it for HGVS Validation with this package…
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Experiment Type:
RNA-Seq
Sequencing of total cellular RNA
Workflow Management:
Bash/SLURM
Scripting and job scheduling
Software Stack:
FastQC
MultiQC
STAR
RSEM
samtools
DESeq2
What …
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Hi all,
I have the following issue:
![Screenshot 2024-04-08 171628](https://github.com/deeptools/deepTools/assets/20404754/df4d39f4-ac66-4ad6-aed7-94a994ea87da)
![Screenshot 2024-04-08 171649](http…
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Hi there,
Thank you again for helping me the other day with the issues I was having. I've been able to run bambu successfully on some of my samples, and I have a couple of follow-up questions (I ho…
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Hi @AhmedElsherbini. I came across your repo while trying to find a way to download dataset from HMP database. However, I am getting error when I am trying to download the data in the example_manifest…