pycoQC
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pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies basecaller (Albacore/Guppy)
I'm wondering is it possible to get the stat like start and stop time for sequencing for each file (which contains 4000 reads), belonging to each barcode using PycoQC? thanks...
Hi, We recently updated plotly to 5.7.0, but pycoQC couldn't handle that and errored out requiring plotly 4.1.0. Are you planning to update pycoQC? Thank you, Praful
- Python 3.9.4 (and tested Python 3.6.13 ) - Conda installation on Ubuntu 20 - Basecalled using Guppy Version 4.4.0+3a263d4 - Have also tried on different dataset - Also attempted...
Hello, version of PycoQC 2.5.2. There are no errors, but the number of reads by barcode in html file is different from counting by other methods. I tried to count...
**Describe the bug** When providing barcoding summary files by parameter `-b`, I got this error: ``` Checking arguments values Check input data files Parse data files Merge data Traceback (most...
Add specific plots and report if the dataset is cDNA or dRNA aligned on a transcriptome reference At the moment the coverage plot doesn't make a lot of sense for...
**Describe the solution you'd like** pycoQC HTML report could contain a short diagnostic section for every plots to help users decide whether the dataset is of sufficient quality. for example:...
The current pysam method load the entire bam file in memory. Using Jared's bri package would allow to load reads one at the time => https://github.com/jts/bri Using the ONT python...
**Is your feature request related to a problem? Please describe.** At the moment pycoQC only does single run QC. It would be great to be able to have a simple...
**Describe the bug** Hi, I have a direct RNA ONT run. I ran pycoQC using the sequencing_summary file generated by Guppy. From the html file, I can see the passed...
