Rachel Colquhoun

Change code so use sstream and can compare these during test runs without writing to file

Update est_abundance.py

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I believe I have found the cause of #225 (and possibly some other?!) Some kraken reports generated seem to have the direct reads and descendant reads columns switched by comparison...

I have run Kraken2 on some nanopore sequencing data from a metagenomic run of stool spiked with Human Sapovirus, called against the prebuilt Viral kraken2 database from https://benlangmead.github.io/aws-indexes/k2. When re-estimating...

This PR does the following: 1. I found a way to avoid having the user type git lfs commands and having to unzip the files during install. This makes the...

Given that the taxon ids and their ranks (species vs subspecies) seem to be changing with alarming pace at the moment, would it be possible to include the datestamp of...

A short "genome" sequence causes a hang, not a fail

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I realise this is not the typical use case, but I was trying to simulate reads with the error profile of nanopore and did not care about the length. I...