Thomas Roder

Official docker image

2

Hi! I would like to use your mod, but I could not find a (current) docker image for it. Would it be possible for you to provide an official docker...

start atom in specific project (from command line)

1

# Issue Is it possible to open a file in a specific project from the console? I.e.: I have a project called "great_project". This doesn't work: `atom --project great_project `...

I'm using `winfsp-1.9.21033` and `sshfs-win-3.7.21011-x64`. If I run this script on the server: ```bash #!/bin/bash mkdir A B touch B/realfile.txt ln -s ../B/realfile.txt A/symlink.txt ``` I get this layout: ```...

Feature request: Ability to pin/star/favourite items

3

I would like to pin commonly-used items (for example my email address) on top of the GPaste list. This has been implemented in [Clipboard Indicator](https://extensions.gnome.org/extension/779/clipboard-indicator/) as follows:  If...

Hi! I annotated a bacterium (_Acidipropionibacterium acidipropionici_ - strain FAM19036) with [NCBI PGAP](https://github.com/ncbi/pgap). I wanted to create SeqIO-objects from the gff file, but it failed: ```python3 import pprint from BCBio...

I found this option which may be useful: ```python3 from selenium.webdriver.chrome.options import Options options = Options() options.add_experimental_option("prefs", {"profile.managed_default_content_settings.images": 2}) ``` It prevents Chrome from downloading images, increasing page load speed....

When a gene begins at the end of a scaffold end ends at the start of the scaffold, the result looked like this:  With this fix, it will only...

Hello Thanks for your work, I implemented DnaFeaturesViewer in my [software (click on compare gene loci)](https://opengenomebrowser.bioinformatics.unibe.ch/compare-genes/?genomes=FAM19471-i1-1.1+FAM3257-i1-1.1+FAM18815-i1-1.1+FAM21277-i1-1.1+FAM21784-i1-1.1+FAM21789-i1-1.1+FAM20558-i1-1.1+FAM1079-i1-1.1+FAM22472-i1-1.1+FAM23169-i1-1.1+FAM20446-i1-1.1&annotations=K01854)! I found a small bug: sometimes, a gene spans the scaffold. Happens rarely with...

Support for non-binary traits

9

Dear @AdmiralenOla Under `Coming soon`, you list `Support for non-binary traits`. This could be of interest to me. What approach are you thinking of? (Simply binarizing continuous traits?) What use...

Feature request: Additional output file with consensus gene name per orthogroup

36

Hi! I wrote a [quick-and-dirty script (`orthogroup_to_gene_name.py`)](https://github.com/MrTomRod/orthofinder-tools) that takes `Orthogroups.tsv` and turns it into `Orthogroup_BestNames.tsv`. This file looks like this: | Orthogroup | Best Gene Name | Gene Name Occurrences...