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Contents:
Tutorials
Command Line Reference
Module Reference
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Welcome to kbbq’s documentation!
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Welcome to kbbq’s documentation!
¶
For a quick introduction, check out the
Quickstart
tutorial.
Contents:
Tutorials
Quickstart
Installation
Recalibrate Reads
Benchmark Quality Scores
Plotting Benchmarked Scores
Installation
Virtual Environments
Creating a Virtual Environment with pipenv
Creating a Virtual Environment with conda
Creating a Virtual Environment with venv
Testing that installation was successful
Example Recalibration Workflow
Software Requirements
Downloading the Data
Recalibrating a BAM file
Correcting Reads
Calibrating FASTQ Reads
Benchmarking Calibration
Plotting the Benchmark
Command Line Reference
Command Line Help
recalibrate
benchmark
plot
FASTQ Input Help
FASTQ Input Requirements
Inferring Read Groups
First or Second in Pair
Benchmark Read Matching
Converting from BAM to FASTQ
Module Reference
kbbq
kbbq.recaltable
kbbq.compare_reads
kbbq.plot
kbbq.benchmark
kbbq.read
kbbq.covariate
Indices and tables
¶
Index
Module Index
Search Page
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