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I'm trying to map cDNA reads to the human genome, but I get a SAM file with no mappings.
I think I'm following the instructions; here is my call:
mark@imlstaupo:/graphmap$ graphmap align -t 20 -…
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Be sure that we index and search against first name + display name (using prefix search)
Definition of done:
- [x] Default mapping is modified in order to handle prefix search https://github.com/li…
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Hello,
I am currently attempting to run CITE-seq-Count on my data, however, it appears to get stuck and not continue at a certain point during the run. Do you have any idea what could cause this?
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### Summary
Add a new flag that works similarly to the [terragrunt-modules-that-include](https://terragrunt.gruntwork.io/docs/reference/cli-options/#terragrunt-modules-that-include) flag, but instead…
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I use hifiasm with HiFi reads to construct primary contigs, and scaffolding with 3ddna pipeline. Although I obtain a relatively complete genome, with 92.9% of busco and 95% of primary contigs, the ext…
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The rust [preopened_dir][1] method has parameters for setting permissions to allow mapping the directory or its files as read-only. The python `preopen_dir` doesn't currently expose these parameters, …
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Hello,
I have to write a custom encoder from Protobuf to something else. I've noticed that the Visitor protocol is public so I was planning to create a custom Visitor that will do the encoding.
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Hi,
I was wondering if there are plans to update winnowmap to include sequence information even if mapping quality is 0 in BAM file? We noticed that when mapping quality is 0 for a read, winnowmap …
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Hello
Thank you for developing these fantastic tools!
I'm attempting to map short paired-end reads to a structural graph and call variants, similar to VG but I prefer how I can determine the s…
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Hello,
I am aligning 5210 RNA-seq reads to all the predicted ORFs from Arabidopsis thaliana. STAR finishes successfully without any issues. This is how my command looks like:
STAR --runThreadN 50 …