Ammar Aziz
Ammar Aziz
### Prerequisites + [x] Have you read [Feedback](https://guangchuangyu.github.io/ggtree/#feedback) and follow the [guide](https://guangchuangyu.github.io/2016/07/how-to-bug-author/)? * [x] make sure your are using the latest release version * [x] read the [documents](https://yulab-smu.github.io/treedata-book/) * [x]...
### Prerequisites - [X] make sure you're are using the latest version by `seqkit version` - [X] read the [usage](http://bioinf.shenwei.me/seqkit/usage/) ### Describe your issue Hi Shenwei, seqkit is an amazing...
Hi, Thank you for the cool package. I'd like to request "consensus view". That's when only the sequence of the reference (the top alignment) is visible with the rest hidden/replaced...
**Current Behavior** Augur version 14 introduced `--tree-builder-args` which allows the user to create a tree with bootstrap values. IQTree has two methods bootstrapping trees, traditional bootstrap and UltraFast Bootstrap (UFBoot)....
**Preamble** Before detailing this feature request, I would like to say that if this request is outside the scope of `augur` then please feel free to close this issue. I...
Dear Nextstrain team, Thank you for creating and maintaining `augur`. The `augur titers` sub command takes a `--titers` argument. However, there's a lack of documentation on the file format or...
Hi there, I hope this is okay to post here. If you are having trouble running `assembly-stats` checkout this fork which demonstrates how to run using github pages: https://github.com/ammaraziz/assembly-stats Demo...
Hi there, Thank you for creating and maintaining NanoSim, great tool. Could nanosim be used to fine tune the parameters of Minimap2? If so do you have any recommendation on...
Virus properties only supports labeling of substitutions. There are mutations of interest, such as antiviral resistance, Ngene, which are deletions. My usecase for virus properties might be outside the scope...
Feature request to output the dataset tag/version used to generate the nextclade output. Currently, the dataset tag is not captured in the results output (json or tsv). The dataset tag...