deepsignal
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bioinfomaticsCSU
Detecting methylation using signal-level features from Nanopore sequencing reads
Hi, @PengNi I tried the Deepsignal for 6mA detection and all the position is matched with the 5mC modification on the reference sequence. I don't know what happened about my...
Hi, I have three bacterial whole genome sequencing samples in which the first is control and the other two are the same organism grown in different growth environments. I have...
Hi, I downloaded E.coli nanopore data from the European Nucleotide Archive (ENA) under accession PRJEB13021 (ERR1676719 for negative control and ERR1676720 for positive control) using Xunlei. The files were fully...
Hi dear, firstly thank you for providing Deepsignal. I am wondering how can ı visualize the output of Deepsignal? could you offer any package or guideline in order to visualize...
Dear Peng, I wonder if it is possible to use Deepsignal to detect methylations in RNA from samples sequenced by the direct RNA sequencing kit from ONT. I think about...
Hi, Is there any possibility that you update DeepSignal to accepts multi-read fast5 files? Because, when the number of samples is high, it is painful to convert multi-read files to...
may be it is better to add a "--region" option in the _extract_features_ and _call_methy_ modules, to only extract and testing the basemods in the interested regions.
Hi, I am writing to seek assistance regarding an issue I encountered while using DeepSignal for m6A methylation calling on the E. coli genome. The tombo processes yielded satisfactory results,...
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Detecting methylation using signal-level features from Nanopore sequencing reads