qs2 - Efficient Serialization of R Objects
Streamlines and accelerates the process of saving and loading R objects, improving speed and compression compared to other methods. The package provides two compression formats: the 'qs2' format, which uses R serialization via the C API while optimizing compression and disk I/O, and the 'qdata' format, featuring custom serialization for slightly faster performance and better compression. Additionally, the 'qs2' format can be directly converted to the standard 'RDS' format, ensuring long-term compatibility with future versions of R.
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12.55 score 88 stars 123 dependents 614 scripts 30k downloadsstringfish - Alt String Implementation
Provides an extendable, performant and multithreaded 'alt-string' implementation backed by 'C++' vectors and strings.
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11.15 score 70 stars 127 dependents 20 scripts 33k downloadsseqtrie - Radix Tree and Trie-Based String Distances
A collection of Radix Tree and Trie algorithms for finding similar sequences and calculating sequence distances (Levenshtein and other distance metrics). This work was inspired by a trie implementation in Python: "Fast and Easy Levenshtein distance using a Trie." Hanov (2011) <https://stevehanov.ca/blog/index.php?id=114>. It also includes a modified version of the Starcode all-pairs search algorithm (Zorita, Cuscó, and Filion 2015) <doi:10.1093/bioinformatics/btv053>.
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5.06 score 19 stars 12 scripts 298 downloadsfraq - A High-Throughput and Extensible Toolkit for Processing FASTQ Data
High-throughput extensible toolkit for processing FASTQ data. The goal of this package is to empower users to quickly build out small programmatic 'kernels' to define any FASTQ processing task they may need. Builds on Intel TBB’s flow graph to orchestrate concurrent I/O and data processing; throughput can be as fast as compression and disk speed allows. The package also ships with a suite of predefined kernels for common FASTQ tasks.
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4.30 score 1 stars 9 scripts 120 downloads