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Top 17 C Bioinformatic Projects
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Project mention: 13 Github Projects that Will Supercharge Your Development Journey in 2025 🚀 | dev.to | 2025-03-02
# Clone the MMseqs2 repository git clone https://github.com/soedinglab/MMseqs2.git # Change to the MMseqs2 directory cd MMseqs2 # Set up a build directory and compile the software mkdir build && cd build cmake .. make # Optionally, install the software system-wide sudo make install
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Project mention: Ask HN: Fast data structures for disjoint intervals? | news.ycombinator.com | 2024-07-23
You're looking for an implicit interval tree. The key idea is to store sorted ranges and simulate the interval tree via binary search. The best implementation I know of is coitrees: https://github.com/dcjones/coitrees, but you could also roll your own. cgranges is another good implementation: https://github.com/lh3/cgranges
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NOTE:
The open source projects on this list are ordered by number of github stars.
The number of mentions indicates repo mentiontions in the last 12 Months or
since we started tracking (Dec 2020).
C Bioinformatics discussion
C Bioinformatics related posts
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Segmenting Credit Card Customers with K-Means: A Fun Dive into Clustering
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Bioawk: Awk Modified for Biological Data
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Illumina adapters and quality trimming
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looking for a tool to filter non-coding regions/excise ORFs from a draft assembly
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Help with understanding awk code
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Any links to R-scripts for common NGS pipelines?
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Is BioAwk frequently used, or even useful?
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Index
What are some of the best open-source Bioinformatic projects in C? This list will help you:
| # | Project | Stars |
|---|---|---|
| 1 | minimap2 | 1,905 |
| 2 | MMseqs2 | 1,587 |
| 3 | bwa | 1,584 |
| 4 | seqtk | 1,439 |
| 5 | foldseek | 921 |
| 6 | htslib | 834 |
| 7 | bioawk | 601 |
| 8 | hh-suite | 563 |
| 9 | miniprot | 354 |
| 10 | kent | 232 |
| 11 | biofast | 181 |
| 12 | readfq | 174 |
| 13 | MethylDackel | 170 |
| 14 | cgranges | 165 |
| 15 | libBigWig | 76 |
| 16 | libdna | 19 |
| 17 | bam-filter | 5 |
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