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Apologies if I have missed something (I've been through the paper and the documentation couple of times) but I can't find a description of how the plmblast score is calculated, or how it should be int…
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Hi, I am running the latest cnvkit image on the docker hub.
I get spurious calls where many reads with mapq = 0. I tried cnvkit.py coverage with the -q option, but it does not do anything. Is this a …
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Before doing runs, I have been filtering out samples in the Viridian dataset based on two criteria: (1) having full-precision collection dates, and (2) having at most 800 Ns (excluding gaps) in the _*…
szhan updated
3 months ago
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Hello,
Thank you for this excellent software. I am trying to compare ProjecTILs annotation with Azimuth.
I have a large dataset from bone marrow aspirations and would like to annotate all the immune…
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Hello! I'm currently trying to run a gapped alignment with the mmseqs search function, but I can't find an appropriate parameter to do this. I'm attempting to look for an individual query gene in a da…
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Hey, I am really interested in this work and want to know whether the data are available now?
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Dear YaHS Developers and Users,
For large genomes, the .assembly and .hic files generated by YaHS are not fully compatible with Juicebox. Manually setting the scale factor in Juicebox may be necess…
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I like Sargasso very much! It's working very well for me and is a nice integrated pipeline. I've one hitch/consternation to inquire about, or at east to suggest for further development/updates.
I'…
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**Are you using the latest release?**
If you are not using the latest release of funannotate, please upgrade, if bug persists then report here.
v1.8.13
**Describe the bug**
A clear and concise des…
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Hi,
I encountered similar errors as to issue #13 when running StrintTie version 1.3.3. StringTie basically stuck at a certain bundle for days. I looked at this region in IGV and it seems like this …