Hasindu Gamaarachchi
Hasindu Gamaarachchi
I will close this issue for now. Feel free to reopen if you have any more questions/requests.
Hello Yes, your understanding is correct. resquiggle - align a raw signal to the basecalled read eventalign - align a raw signal to the reference genome/transcriptome I did not completely...
Do you mean the columns like the event mean and event standard deviation columns in the eventalign TSV output?
Hello, has this issue/question been resolved?
I am closing this issue as there isn't a response. Feel free to reopen if you need anything.
Hi For f5c meth-freq, I have not implemented this scaling based on the group size discussed here https://github.com/jts/nanopolish/issues/695. That lowering of llr to 2.0 is only suitable if that group...
I could implement an option for group-based scaling and if you are interested in getting the llr to 2.0
After 2 days of hectic debugging, I think I found the issue. The data type for the _Events_ group as given by _h5dump_ is as follows, ``` GROUP "BaseCalled_template" {...
Hi @jts The dataset that I used was downloaded from (https://github.com/nanopore-wgs-consortium/NA12878/blob/master/Genome.md) under the _FAST5 (Signal Level files) section_. I am attaching one of those fast5 files here for your convenience....
I hope bioconda soon supports Python 3.11. I have got a request to get pyslow5 for Python 3.11 on conda https://github.com/hasindu2008/slow5lib/issues/83.