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gamcil
Gene cluster comparison figure generator
Hello, I am running Clinker on a server (installed via conda) for five genomes (from the same genus); gbk files were downloaded from GenBank. I use the following command: `clinker...
Testing for #9, the good news is using the --compliant switch for PROKKA apparently allows the script to continue beyond where it would previously crash, but then clinker engages in...
I read the README, and it appeared that genbank files were the only supported format for input, but I see in the issues (e.g., https://github.com/gamcil/clinker/issues/10) that fasta + gff is...
I am running clinker over dozens of clusters, it is quite labourous to load and export every SVG. It is even more painful when I want custom settings for the...
Hi ! I am trying to compare a large gene cluster between two non-annotated genomes. To do that, I first generated gff3 files for genes in a particular region of...
Clinker is a great tool for comparative genomics. It would be even better if it could: 1. Change font style (eg label), eg italic or bold 2. The default higher...
Hi, Im new to clinker. I have tried to use it through the cmd shell of windows. When I use the command: clinker cluster/865-C1.gbk, 790_C1.gbk 771, 17-D1.gbk -p it only...
Hi, I have some questions regarding using Clinker 1. how to reappear the hidden group in web browser? 2. how to undo an operation in web browser? looking for your...
I like clinker for visualizing synteny in plasmids. There is a problem with plasmid sequences, however, in that they don't always start at the same position. Bacteria chromosomes are rotated...
How do I remove genes that are within the middle of the cluster? The demo.gif shows this functionality is possible but I am not sure how to actually to do...
