atropos
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jdidion
An NGS read trimming tool that is specific, sensitive, and speedy. (production)
For much of the cli help docs, the defaults are not included. For example: ``` Heuristic Detector Options: --min-frequency MIN_FREQUENCY Minimum frequency required to retain a k-mer. --min-contaminant-match-frac MIN_CONTAMINANT_MATCH_FRAC Minimum...
The cli docs for `Atropos version 1.1.31` state: ``` --max-reads N Maximum number of reads/pairs to process (no max) ``` ... but the max is actually set to `10000` instead...
Hello! Just to clarify things - as far as I understand, atropos cannot remove incomplete 5' adapters that are incomplete at the tail, not head (so as cutadapt)? I.e. if...
I get a random error while running the detect command. Although few runs are successful. We have ran near to 50 jobs with same inputs on local server to understand...
Do you have an idea why the bioconda package is tied to python 3.6? I am trying to track down conda dependency issues and this may be one of them....
https://cutadapt.readthedocs.io/en/stable/guide.html#non-internal-5-and-3-adapters
I just fixed the File Not Found (issue #86) a bit (see my pull request), but whereas it seems to now be able to read sam and bam files, it...
Hi, I've just noticed that the first lines of the file `sequencing_adapters.fa` mention: ``` # This list was boostrapped from the FastQC contaminants.txt. # TODO: add missing Illumina adapters from...
