kubu4

To add to what @riederd posted, here's additional info from the Zymo-Seq RiboFree suggestion: ``` If desired, these 10 nucleotides can be removed in addition to adapter trimming. An example...

Trying to build database (krakenuniq-0.5.8), but getting the errors seen by @gexijin. krakenuniq installed with following command: ```install_krakenhll.sh .``` Taxonomy downloaded with the following command (dustmasker, needed for "dusting" was...

I'd also like to add a request for this feature. I'd love it if the `name` of the currently selected chart would be displayed - similar to when the name...

Which version are you running? You might need to update. This was resolved in [v2.7.1](https://github.com/marbl/Krona/releases/tag/v2.7.1), as mentioned in #113.

Also, what are the required file formatting for the ```-Flag``` input file and the ```-Index``` input file?

> I've had this same issue and I was able to fix it but I'm not sure it will work for everyone. I noticed that my FASTA files had an...

Well, I've added some print statements to the `analyze_fold` function to try to debug this. Here're the modifications: ```python # It is possible that the new locus folds differently. So,...

Thanks _so_ much for looking into this! It greatly appreciated. I'll get you the outputs from those files listed in a few minutes. In the meantime, if you want to...

`head` of the various files: ```bash (base) sam@raven:/home/shared/8TB_HDD_01/sam/gitrepos/deep-dive$ head E-Peve/data/Porites_evermanni_v1.fa >Porites_evermani_scaffold_1 GGCGGGGGGGGGGGGGGGGGGGGTACTCCCATACATTACCTATACGGGTATGTGCCGCCC AAAAGGGGCCGTGATTTTGAAGCTCCTGATTTAGAACGGGGTATCCATTTCAGAGGCGTT TTCTAGAACGGGGTGTAATATTTCGAACGCACGAAAGCTCCACTTTTGTGTAAGCAGCCA TTTGAAATTATTCAAGGACAGATTGCTTTTAAAAATACGGTTCAGCGCGTTAACAAGCAA ACCGTTGTACTCTTGTTGCACCCTAGAACGGTGTATAAAAAATTGGCCCATTTCTAGAAC GGGGTATCAGTTTTAGGGAGAATTCTAGAACGGGGTATAAAAAATTGGCCCTTTTCTGAA CGGGGCATCAATGTTAGGGGAAATTTTTTCCAGAACGGGGTGCCAATTTGGAGTCCCGGG CGGCACATACCCACCCAAAAAATACCCAAGTGCCCCCCCGGGGTCTAAACCCACATATTC TTCACACTGTTCACAATTTACCTCTTTTGGCTCTTCTAAGGAGAGCTCATCTAAATATTG ``` ```bash (base) sam@raven:/home/shared/8TB_HDD_01/sam/gitrepos/deep-dive$ head data/mirbase-mature-v22.1.fa >cel-let-7-5p MIMAT0000001 Caenorhabditis elegans...

Here's the conda environment I'm running: ```bash conda list # packages in environment at /home/sam/programs/mambaforge/envs/ShortStack-4.0.3_env: # # Name Version Build Channel _libgcc_mutex 0.1 conda_forge conda-forge _openmp_mutex 4.5 2_gnu conda-forge bedtools...