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### Setup
I am reporting a problem with Biopython version, Python version, and operating
system as follows:
```python
import sys; print(sys.version)
import platform; print(platform.python_imp…
veghp updated
2 weeks ago
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I am wondering if there is a reason the there is no animal_nr seed database. If I want to assembly rRNA gene regions for animals, would I need to build my own? Or is GetOrganelle not an good tool for …
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hello,
Both pip and conda install show different usages as compared to shown on the readme.
Conda install : https://anaconda.org/bioconda/rna-seqc
usage from conda install:
~/anaconda3/bin/r…
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I am trying to control CPU usage for the DRAM.py distill pipeline on DRAM v.1.5.0 that I am using on DRAM.py annotate .tsv output from metagenome assembled genomes. As I am using a shared lab server w…
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Intention would be to import and, as possible, annotate/flag non-coding genes (e.g. rRNA, tRNA, even expressed pseudo genes).
More effort-intensive but then required: the exporters need parameteri…
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A useful feature could be to label contigs based on other columns than the sequence ID. e.g. the 16S rRNA gene classification of a contig.
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Dear all,
i have an rna-seq (PE, ss, rRNA removed) from a moss species (no genome available). I run Kraken2 (default options) with plusPFP DB (containing some moss genomes), and what confuses me th…
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Hi, all,
A silly question. Can mirtrace identify other types of small RNAs besides tRNA, miRNA, rRNA, and artifact? Or why no people use featureCounts to annotate small rna?
Thank you for your r…
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Hi,
A very helpful feature to add would be the demultiplexing of the reads as an optional step. This [function](https://docs.qiime2.org/2018.11/plugins/available/demux/) has already been developed on…
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Ensembl GTFs have "gene_biotype", instead of "gene_type", attribute.
ftp://ftp.ensembl.org/pub/release-102/gtf/homo_sapiens.
This affects the calculation of fraction_rrna in the bamstats program, …