a-slide / pycoQC

pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies basecaller (Albacore/Guppy)

https://a-slide.github.io/pycoQC/

a-slide/pycoQC Issues

Different number of reads by barcode
Updated 4 months ago1
Info barcode analysis
Updated 5 months ago2
pycoQC is still requiring plotly==4.1.0 -- any further development?
Closed 5 months ago1
pip installation doesn't work
Updated 6 months ago
Barcode_split on P2solo SQK-RBK114-24 data fails
Updated 8 months ago
stop analysis at a given time in the run
Updated 8 months ago
seeking help on pycoqc output
Updated 9 months ago1
bam test data
Updated 10 months ago1
Q: Many empty plots
Closed 2 years ago3
Error when providing barcoding summary files
Updated a year ago1
Generated summary file missing required column
Updated a year ago
PycoQC fails when fastq is trimmed using Pychopper.
Closed a year ago1
About passed read number
Updated 2 years ago
stat for each file/barcode
Updated 2 years ago
plotly 5.7.0 error
Updated 2 years ago
Fast5_to_seq_summary error
Closed 5 years ago8
pycoQC looks for 'read_len' column in sequencing_summary. it isnt there
Closed 5 years ago13
Repo URL is dead
Closed 3 years ago2
AttributeError: 'Series' object has no attribute 'ptp'
Updated 3 years ago9
Interval Unit in Output over time plot
Closed 3 years ago2
green read-length distribution plot for each barcoded sample
Closed 3 years ago1
transcriptome mode for post-alignment QC
Updated 3 years ago2
is it possible to have output as tsv or tab separated txt file using summary and bam files ?
Closed 3 years ago
is it possible to implement input as fastq reads and have output summary stats in tab separated txt/tsv?
Closed 3 years ago1
Add diagnostic description in the HTML report
Updated 4 years ago
Implement BRI instead of pysam for BAM reading
Updated 4 years ago
Cannot install pycoQC on Ubuntu 20.04.1 LTS
Closed 4 years ago7
Summary breakdown by runID within one sequencing summary file?
Closed 4 years ago2
pycoQC.common.pycoQCError: Invalid sequencing summary file
Closed 4 years ago2
Can not install pycoQC (version 2.5.0.21) in anaconda
Closed 4 years ago4
Output -Bam files Phyton 3.7?
Closed 4 years ago3
Ability to compare several runs
Updated 4 years ago4
"run summary by barcode" section missing?
Closed 4 years ago2
No module named 'pysam.libchtslib
Closed 4 years ago4
AttributeError: 'Series' object has no attribute 'ptp'
Closed 4 years ago6
How can I get Bam -alignment reports if I am not using human genome?
Closed 4 years ago4
Cannot use alignment file as an input
Closed 4 years ago2
Many contigs in reference break pycoQC report html (bam analysis)
Closed 5 years ago7
No module
Closed 5 years ago6
min / max length filtering
Closed 5 years ago2
install pycoQC version v2.5.0.7 using Conda install
Closed 5 years ago7
ZeroDivisionError with .bam input
Closed 5 years ago4
Add filename to report
Closed 5 years ago3
exporting plotly tables from report to csv
Closed 5 years ago4
Add fastq support
Closed 5 years ago3
Remove duplicated reads
Closed 5 years ago1
The channel activity plot is not working as expected for Promethion data
Closed 5 years ago2
Export tables from report as *.tsv.
Closed 5 years ago1
Option for static image generation in HTML report
Closed 5 years ago1
pycoqc v2.2.4 on conda?
Closed 5 years ago1