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# Tentative configuration file for conflict removal using the conflict graph.
# Experimental. Do not use.
[Reads]
# This is the same as in Nanopore-Dec2019.conf.
minReadLength = 10000
[Kmers]
# Don't use as markers k-mers that are overabundant even in a single read.
generationMethod = 2
enrichmentThreshold = 100
[MinHash]
# MinHash parameters are the same as in Nanopore-Dec2019.conf.
minBucketSize = 5
maxBucketSize = 30
minFrequency = 5
[Align]
# This is the same as in Nanopore-Dec2019.conf.
minAlignedFraction = 0.4
# Don't allow alignments in which one read is completely contained
# in another read.
suppressContainments = True
# Use SeqAn banded alignments.
alignMethod = 3
matchScore = 6
[ReadGraph]
# Use the directed read graph.
creationMethod = 1
# Turn on conflict removal.
removeConflicts = True
[Assembly]
consensusCaller = Bayesian:guppy-3.0.5-a
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