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For 3.20.20.190 (and hopefully 2.30.29.30) provide:
* sequence alignments (based on structure)
* structure superpositions (including HETATMs)
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Top-scoring alignments with scores well over the relevant threshold seem to be discarded when they also contain insertions. For instance, the following V alignment will not be included in the n_V_alig…
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Hi, thanks for the amazing tool by the way! I'm having an issue where RAxML can't parse alignments for which there are sequences made entirely of undetermined characters:
[e] error while refining…
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Hi, I tried rsem-calculate-expression using bowtie, and the mapping step appeared to be completed. Then I got the error message
"The SAM/BAM file declares less than one reference sequence!"
sin…
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Hi Felix,
I have a couple of questions regarding Bismark. I'm sorry if they are stupid questions; I am fairly new to WGBS data and Bismark analysis (or to bioinformatics in general).
We are rese…
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The GRCh38, T2T-CHM13, chimp alignments fail to align more than half of chrMT despite having identical sequence to
GRCh38. This is the t2tChm13_20200727 assembly
[chrMT.pdf](https://github.com/…
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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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Know
Technology
- computer setup pages(s), participants to do it before attending)
- installing / updating cogent3 (PyPl or GitHub). (Advice from Peter M was to do it via conda, but this wo…
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Hi there,Do I need full-length transcripts to use ESPRESSO? For example, if the reads are not full-length, do they need to be filtered out?
Why do different positions of the same transcript support d…