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Hi there,
I'd like to add another voice for providing support for longer reference sequences: it already seems useful for some genomes, and as better assembled and larger genomes come out it seems …
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I just had an interesting idea: If we don't know who is the closest relative of an individual over the whole ARG, we could collect the spans over which each sample node is another sample's "nearest ne…
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Hello, I want to use PROmiRNA for mouse miRNA TSS prediction. While running the program, I bumped into problem like these. I wonder if it is because using the wrong -s file (gene start region gff), an…
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Once the output is created, it would be nice if a matrix 1/0 representing presence/absence for each gene is generated. Users could select minimum coverage and identity treshold for considering a gene …
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Dear all,
I am trying to use this tool for mapping RNAseq reads to a plant reference genome. I have 50 libraries with around 2.5Gb of data in each (2 x 100 bp). Most libraries were mapped quite ea…
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While preparing to calculate a new gene family set, I notice that the 2018 gene family collection uses a naming pattern that is (I think) inconsistent with the general pattern throughout the Data Stor…
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Hello, I have recently obtained data on several Mtb lineage 5 and M. canetti strains, and I have been using Mykrobe v0.13.0 to predict their species and lineage.
In the case of the Mtb lineage 5 sa…
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Dear shujun,
First of all apologize for my bad English. I have sequenced dozens species, these species belong to the same genus (eg. wild, cultivars, landrances), and I will construct a pan-genome. S…
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I'm [creating a Tripal module](https://github.com/NAL-i5K/tripal_eutils) that imports NCBI XML and creates chado records, as well as linked records.
I think it would be neat to have a recommended, …
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Hi team,
I found myself recently needing to investigate the phylogenetic distance between 2 specific ASVs and thought it might be really useful if Empress could visually highlight the full path be…