pycoQC
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a-slide
pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies basecaller (Albacore/Guppy)
Currently, the code looks at the enumerate index `i` to see if a fast5 file was found in the given directory. However, if a directory does not have any files...
Hello, PycoQC exits with an error when I use it in with a bam file generated from a fastq file that was trimmed using Pychopper. When I do not use...
Hi, Thank you for working on such a great tool for ONT analysis. I have a question on the possible analysis that can be performed on barcoded reads. In particular,...
Hi, I am having the following error when installing the tool: ``` $pip install git+https://github.com/a-slide/pycoQC.git Collecting git+https://github.com/a-slide/pycoQC.git Cloning https://github.com/a-slide/pycoQC.git to /localData/000scratch/pip-req-build-eziog0hw Running command git clone -q https://github.com/a-slide/pycoQC.git /localData/000scratch/pip-req-build-eziog0hw ERROR: Command...
Hi, : running pycoQC v2.5.2 in a conda env (see list below) My data was obtained with the current SUP basecalling pipeline on the gridion (guppy 7.1.4 , Super-accurate basecalling,...
Hi and thanks for the great utility my run started to fail after 435h of the 90h run. I can probably shorten the summary file but it would be nice...
Dear pycoQC developer team. Thanks for building this nice tool. My problem is not an issue rather a help on the output file obtained through pycoqc. I generated html file...
Hi I'm trying to fix the galaxy tool for pycoQC for BAM input (https://github.com/galaxyproject/tools-iuc/pull/5201). Wondering if you have input data that is supposed to work? With the input data I'm...
Hello @a-slide, I hope you are having a great day! I was testing out pycoQC and ran into an issue after generating a summaries file with `Fast5_to_seq_summary`. **Describe the bug**...
command line used : `pycoQC -f seq_summary.txt -a goi.bam -o output_pycoqc.html ` After executing this ommand line in the pipeline, two of all the graphs produced by pycoQC are empty:...
