Tools for QC-ing and Plotting outputs from PacBio's NoAmp protocol. These tools require the following libraries to run successfully:
- matplotlib >= 2.0
- numpy >= 1.11
- pandas >= 0.20
- pbcore >= 1.2
- seaborn >= 0.8
Using NoAmp sequence data aligned to HG19, summarize and plot the number and fraction of ZMWs on-target
USAGE: python NoAmYieldDiagnostic.py OUTPUT_PREFIX ALIGN_BAM_PBI
Using NoAmp sequence data aligned to HG19, summarize the location, contents, and ends for possible loading effects.
USAGE: python NoAmpSequelLoadingDiagnostic.py OUTPUT_PREFIX HG19_FASTA ALIGN_BAM_PBI SCRAPS_BAM
Plot the distributions of evidence, by barcode and by target locus, as generated by Repeat-Analysis on NoAmp sequence data
USAGE: python RepeatAnalysisPlots.py REPEAT_ANALYSIS_FASTQ REPEAT_ANALYSIS_ZMWS_CSV [REPEAT_ANALYSIS_ZMWS_CSV ...]