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I have all of my data in tab-separated files that import into pandas. I want to try and use some of the methods in the `Artifact API` to speed up my workflow instead of running the separate modules o…
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Hi there,
The preprint for Distanced - https://www.biorxiv.org/content/biorxiv/early/2018/09/24/423186.full.pdf - has just been released.
Big take-home message on their benchmarking is that DADA…
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Hi there
First of all, thanks for developing such a useful tool and supporting moFF with Import2MSnSet.
I am trying to set up a quantification pipeline using the Compomics workflow (searchGUI, p…
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In your statistical_testing analysis, following IRS normalization, the result of the decide tests function looks you might be overfitting your data.
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC46…
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hi ,
I am trying to use abundance_estimate_to_matrix.pl script to form a matrix but i am getting this error .
CAN YOU PLEASE HELP ME.
./util/abundance_estimates_to_matrix.pl --est_method kallis…
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I am trying to figure out how to use IsoformSwitchAnalyzeR to quantify isoform abundance and identify isoform switches with data from Salmon quantification. I'm really stuck at the very beginning. I…
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Hi, I run this command for abundance estimation for each replicate I have
usr/local/bin/trinity/util/align_and_estimate_abundance.pl --transcripts Trinity.fasta --seqType fq --SS_lib_type RF --left o…
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The script referenced at https://github.com/pachterlab/aggregationDE/blob/master/R/Snakefile#L77 does not appear to exist in this repository. Can you point me to a location where I can download it fr…
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Transfer over the plotting scripts for CRAM results into a new notebook and decide on which figures will go into figure 3 for the manuscript. Standardize the CRAM output and count metabolites categori…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/miaozhun/DEsingle
Confirm the following by editin…