Name		Name	Last commit message	Last commit date
parent directory ..
.gitignore		.gitignore
README.md		README.md
cardinality_estimate_confidence.py		cardinality_estimate_confidence.py
check-tree.py		check-tree.py
compute-dna-mh-another-way.py		compute-dna-mh-another-way.py
compute-input-prot-another-way.py		compute-input-prot-another-way.py
compute-prot-mh-another-way.py		compute-prot-mh-another-way.py
trim-noV.sh		trim-noV.sh

README.md

Misc utility scripts

Misc scripts

trim-noV.sh - a script to do trimming of short reads. requires khmer >= 2.0.

Debugging and testing scripts

check-tree.py - exhaustively confirm the results of a search on an SBT.
compute-dna-mh-another-way.py - a separate implementation of MinHash signature calculation for DNA.
compute-input-prot-another-way.py - a separate implementation of MinHash signature calculation for proteins.
compute-prot-mh-another-way.py - a separate implementation of MinHash signature computing for 6-frame translations of DNA into amino acid space.

CTB 1/2019

Formula implementations

cardinality_estimate_confidence.py - a function that will tell you if the sketch size is too small to trust the estimate sketch_size * scale as an estimate of the number of distinct k-mers.

DMK 5/2022