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Hi Brian.
I've moved on to EVM after talking with you about TransDecoder yesterday. I'm trying to use Exonerate protein2genome alignments from a Maker run as input to EVM. I'm am wondering about ge…
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After installing with:
```$ cabal new-install hw-json-simd```, running the example causes a segmentation fault.
```
$ echo "{}" | pv -t -e -b -a | hw-json-simd create-index --method standard -i /de…
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Hi, I have some questions about using RMATS
1. If I only want to test how much AS is contained in a sample (containing 3 biological replicates) instead of differential variable shear, the followin…
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Hello,
Not sure who is monitoring these issues now @satta has left Sanger, but I wasn't sure where else to send it.
Sascha showed me how to run companion on the command line using a fungidb refe…
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Hello,
I am running Braker3 using only proteins but I am stuck on this part, could you help me?
I installed Braker3 with singularity as indicated on the page.
My command:
```
singularity exe…
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Hi!
By using this config file: https://github.com/riboviz/example-datasets/blob/main/fungi/saccharomyces/Weinberg_2016_RPF_1_sample_cerevisiae_CDS_w_250utrs_config_2-1.yaml
The resulting BAM fi…
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Hello!
It is a question rather than an issue.
STAR is a very good aligner with its great performance and the configurable options for users to control mapping in detail.
I use STAR and STAR-Fusio…
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I am a computer architect, interested in benchmarking workloads for the sake of comparing different CPUs. I have used BLAST in my workload set in the past, but I would like to upgrade to what research…
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Dear,
We succesfully implemented CTAT-splicing in our STAR-fusion pipeline.
**1) we pick up all our relevant fusion genes using STARfusion**
**2) we correctly picked up METx14del,** without fal…
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Hi,
I ran HiSat2, MarkDuplicate, removed reads with the lower quality score than 40 and finally only kept properly paired reads. Scallop/StringTie and TransDecoder could predict UTRs but unfortunatel…