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PathGO has terms that describe proinflammatory processes at the cellular level:
1. PATHGO_0000005 (non-specific T cell activation factor)
2. PATHGO_0000010 (mediates non-specific T-cell activation…
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I'm having troubles with ensDbFromGff for some gff3 files downloaded from Ensembl ftp. For example, Danio rerio in Ensembl versions 94, 95, and 96 (but not Ensembl versions 93, 92, 91, 90, or 85), usi…
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We are analyzing DDA-PASEF data using Fragpipe version 22 (MSFragger 4.1). We are interested in identifying bacterial proteins, so searching the raw data against database containing protein sequences …
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Hi Torsten,
would it make sense to add Biotypes to the annotation, like in [eukaryotic genomes](https://www.ensembl.org/info/genome/genebuild/biotypes.html)?
I have at least one use case where this …
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Hello developers,
Thank you for the tool. I am benchmarking taxor version: 0.1.3 SeqAn version: 3.4.0-rc.1on ZYMO sample sequenced on ONT using prebuilt database containing Archaea, Bacteria, Fung…
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**Date**: August 9th 2022
**Time**: 2pm UK time ([other times](https://www.timeanddate.com/worldclock/meetingdetails.html?year=2022&month=8&day=9&hour=13&min=0&sec=0&p1=43&p2=136&p3=37&p4=771&p5=235&…
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Query from RT:
I don’t understand a summary ariba is running, where what looks like good hits get discarded. If I look at e.g. ariba_BBVQ01_ariba_eff_out/report.tsv
the hits for cluster 38 (esp…
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I haven't figured out what to call this, but the table below is an incomplete answer to the question:
what’s the largest collection of hashes present in a single genome that leaves you in doubt as …
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ref #51
Mo -
so, khmer pre-allocate the memory even there's no need for it?
titus:speech_balloon: 9 minutes ago
Yes - after all, how do you know how many kmers there are if you haven’t read t…
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Hello! I have created a new GraftM package using "graftM create;" I followed the sample protocol on the Wiki to do so. I am now trying to run "graftM graft" using my output package. I keep getting the…