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Hey,
Im using IsoformSwitchAnalyzeR to analyse salmon output. So far everything worked fine.
I have been following the documentation using the importRdata() function to create my switch list and a…
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There seem to be many places where boost random number generators are instantiated (e.g. `boost::mt19937 rng;` in `simulate_count_covariance`) but without a specified seed. So the default seed for th…
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Dear Vadim,
I am trying out a insillico library generated by alphapeptdeep. The library is about 14 GB size. I generated it with carbamidometh and dimeth light as fixed mod and protein n-terminal a…
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when I use the following command, I only get 0 values for the new pme columns in my isoforms.results. Input data is a single cell dataset. How can this be?
rsem-calculate-expression --paired-end --…
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Do we have alignment files? I am interested in see alignment data in IGV,
If it matters I am really interested in LOC120027825
sr320 updated
2 years ago
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Given a homozygous SNP / Indel, there shouldn't be a peptide detected that matches the canonical proteome at that location (given that all isoforms that can produce the canonical peptide have the vari…
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I am running STAR and StringTie on RNAseq data from 4 samples (PE 100bp, 60M reads/sample, stranded) and am looking at the merged.stats file. The numbers for novel stuff being found in my samples is R…
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Hello Eric, thanks in advance for any help that would be offered!
The data I have:
1. RIP-seq dataset for an RNA-binding protein. (Full transcripts that co-immunoprecipitate with the protein are s…
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Good afternoon,
For my PAC-BIO sequencing I performed the 5' cap selection step. I recently found out that the Iso-Seq Tofu algorithm for collapsing is not appropriate for data that performed 5' cap…