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Importing data that has missing probes in a platform is currently producing a warning that is too easily dismissed.
Missing probes are indicative of a problem with the platform.
This issue shoul…
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The gene-score module is very useful and to allow integration with RNA-seq dataset. The current implementation calculates the raw sum of interactions without normalization, although normalized metric…
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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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Dear Team,
I run Whippet on my paired-end, unstranded, polyA+ RNA-seq dataset. The dataset is of 75bp length (all reads in all samples have this length) and performed in triplicates per condition (…
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Hey,
I have a question: my matrix in the "calculate_reaction_score", considering bulk RNA data, must be normalized? In which way? TMM, TMP,log2? I don't see any directive.
Thank you
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Not protein coding, so no UniProt id.
Can look up author given id (or sequence?) at https://www.rnacentral.org/
PHI-base eg PHI:6247 BSR0441 Brucella melitensis
https://www.rnacentral.org/searc…
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To determine how to package the results that we have into journal articles, it would be helpful to separately examine the behavioral and hormonal results for just the animals that had tissue included …
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I am following these commands. However, I am getting blank output file.
minimap2/minimap2 -x ava-pb -t8 pb-reads.fq pb-reads.fq | gzip -1 > reads.paf.gz
# Layout
miniasm/miniasm -f reads.fq reads…
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We would like ti import SO terms, but these currently do not align with Chebi's definition of DNA and RNA molecule.
Need new branch in EFO for SO terms and axiomatise these to either DNA o…
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Hi there,
I've been using isoCirc successfully for a while now but this week after installing v1.0.6, it seems to be generating some errors towards the end of the process. I am able to get isocirc.…