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Hello,
I've been playing around with using halPhyloP to compute PhyloP scores on the 447-way placental mammal alignment. Rather than computing PhyloP scores for entire genomes, we would like to co…
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Hi!
First, what's the difference between "3D model reconstruction by 3DMax" and "3D model reconstruction by LorDG"? How to choose?
Second, if I want to build 3D chromosomes and genome models use …
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Hi all,
As [discussed on the mailinglist some time ago](http://dev.list.galaxyproject.org/odose-td4670198.html) we kindly request your help to make the ODoSE pipeline available to more users easily…
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Dear DiffSegR developers,
Thank you for the very powerful package!
I was just wondering: is it possible to add more than a single locus to the loadData() step? Would it be possible to run the pac…
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Hi! I hope all is going good!
I am trying to run gimme motif2factors (v0.17.1, installed through conda/mamba) on the genome of my organism to be able to run ANANSE. I set up a folder for a custom …
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Hi, thanks for developing this great tool!
I believe a great addition to the workflow would be the possibility to provide a pre-annotated genome as input, allowing to:
1. speed up annotation for bat…
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Currently the `rule featurecount` looks as follows:
```
threads: 4
params:
setting=lambda wildcards: "-Q 10 -B -p" if wildcards.seq_type == "pe" else ""
```
```
shell:
…
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related to https://github.com/GMOD/Apollo/pull/2401
Much of this has been implemented already, but the model within Apollo will need to expand to meet requirements for annotating. Namely:
- e…
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Hi,
I'm trying to enable caching in the CSI driver. I've passed extra mountOptions as follows:
```
mountOptions: "--memory-limit 4000 --dir-mode 0777 --file-mode 0666 --cache /tmp --debug --debug…
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Hi
I've been running Cactus on 3 different Barley genomes (planning to scale up to more genomes later). I've been running each job to create alignments of each chromosome from 1 to 7. I'm breaking …