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Adam Taranto edited this page Sep 18, 2024
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Oxli is a simple Rust library + Python interface for counting k-mers in genomic sequencing data.
Author: C. Titus Brown (@ctb), ctbrown@ucdavis.edu
Installing Oxli
Basic Setup
For Developers
Getting Started
Getting Started
Counting Kmers
Basic Counting
Extracting from Files
Handling Bad Kmers
Looking up Counts
Single Kmer Lookup
Multiple Kmer Lookup
Removing Records Remove Kmers Abundance Filtering
Exploring Count Tables
Iterating Records
Attributes
Set Operations
Basic SetOps
Exporting Data
Histo: Export Frequency Counts
Dump: Write Hash:Count Pairs
Save and Load KmerCountTables