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missing factors in geom_barh with facet_plot(?)

1

Hi, I've been trying to plot a bar chart with community composition together with a hierarchical clustering dendrogram, and while I was able to plot it, there are always some...

**Are you using the latest release?** Installed from master **Describe the bug** Some of the options indicated in some threads are not displayed with the help. e.g. I was looking...

adding custom annotations: ncRNA from Infernal/Rfam

6

Hi there, I'm annotating a few genomes and I realised that funannotate does not have any integrated tool for annotating ncRNA other then tRNAscan-SE. I will be annotating ncRNA through...

on running colabfold locally

10

Hi there, We have plans on running a few hundreds of complexes (some relatively big) and we've been trying to set up a pipeline to run locally on our HPC...

colabfold_batch options

1

Hi there, There are a few options for `colabfold_batch` that don't have or have barely anything in their description, and they are not necessarily self-explanatory. I mainly refer to: ```...

Multimer IPTM score

4

Hi there, quick question, when modelling complexes, are the IPTM scores stored somewhere in the standard output files? or are they just used internally for the scoring/ranking? Thanks

funannotate compare fails at proteinortho

2

**Are you using the latest release?** 1.8.15 **Describe the bug** `funannotate compare` crashes at ProteinOrtho step, wether if you provide the file or if it's run internally. ProteinOrtho output is...

aside chunk behaviour/positioning

1

Hi there, I've been working on my CV with pagedown for a while and I found out that the position of the `::: aside :::` chunks is quite unpredictable, or,...

inconsistent "invalid DNAString input character" errors

3

Hi there, I've been having similar issues to those in #651 and #725 with many of the functions from dada2, e.g. `filterAndTrim()` and `derepFastq()` (see errors at the end). These...

resume/continue job

4

Hi, I've just installed GraftM in our cluster. I got GraftM (`graft`) to run but it crashed for not allocating enough RAM. > 02/11/2016 01:16:57 PM INFO: Working on 028-LFA_S1_R1...