brentp / hts-nim-toolsView external linksLinks
useful command-line tools written to showcase hts-nim
☆50Nov 10, 2020Updated 5 years ago
Alternatives and similar repositories for hts-nim-tools
Users that are interested in hts-nim-tools are comparing it to the libraries listed below
Sorting:
- nim wrapper for htslib for parsing genomics data files☆157Dec 15, 2025Updated 2 months ago
- DNA kmer operations for nim☆14Apr 24, 2022Updated 3 years ago
- A deletion finder through re-aligning the whole soft-clipping read☆12Jul 2, 2016Updated 9 years ago
- Detects human contamination in bam files☆16Sep 10, 2020Updated 5 years ago
- genetic variant expressions, annotation, and filtering for great good.☆271Dec 15, 2025Updated 2 months ago
- AlignerBoost is a generalized software toolkit for boosting Next-Gen sequencing mapping precision using a Bayesian based mapping quality …☆11Mar 1, 2022Updated 3 years ago
- Long Approximate Matches-based Split Aligner☆13Apr 6, 2017Updated 8 years ago
- GARFIELD-NGS: Genomic vARiants FIltering by dEep Learning moDels in NGS☆17Mar 4, 2019Updated 6 years ago
- Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long read…☆12Jan 22, 2020Updated 6 years ago
- (WIP) best-practices workflow for rare disease☆62Jul 1, 2024Updated last year
- pathoscore evaluates variant pathogenicity tools and scores.☆22Mar 25, 2022Updated 3 years ago
- Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata☆58Feb 17, 2022Updated 3 years ago
- command-line querying+conversion of bigwigs and a nim wrapper for dpryan's libbigwig☆16May 2, 2020Updated 5 years ago
- ☆18Mar 14, 2022Updated 3 years ago
- find large indels (in the blind spot between GATK/freebayes and SV callers)☆39Dec 3, 2017Updated 8 years ago
- Hidden Markov Model based Copy number caller☆20Dec 9, 2025Updated 2 months ago
- use the noise☆15Apr 15, 2020Updated 5 years ago
- R function to plot high quality, elegant heatmap using 'ggplot2' graphics . Some of the important features of this package are, colorin…☆11Apr 19, 2016Updated 9 years ago
- LMS algorithm for computing edit distance with SIMD optimizations☆11Mar 25, 2024Updated last year
- Parakit is a tool to analyze the RCCX module, which contain the CYP21A2 gene, using long sequencing reads.☆14Aug 25, 2025Updated 5 months ago
- A Nextflow pipeline for genome and pan-genome annotation☆15Feb 3, 2026Updated 2 weeks ago
- fast easy interval overlapping for nim-lang☆29Jul 9, 2025Updated 7 months ago
- ☆23Sep 9, 2025Updated 5 months ago
- A wrapper for the cMPFIT library for the Nim programming language, https://vindaar.github.io/nim-mpfit/☆18Mar 18, 2025Updated 10 months ago
- Interval data structure☆235Dec 5, 2024Updated last year
- Define and compose random variables☆45Apr 24, 2023Updated 2 years ago
- yaha: a flexible, sensitive and accurate DNA alignment tool designed to find optimal split-read mappings on single-end queries from 100bp…☆20Dec 6, 2017Updated 8 years ago
- BitVector Implementation in Nim☆17May 16, 2022Updated 3 years ago
- Nimssl is a Nim wrapper for the OpenSSL library☆23Dec 25, 2019Updated 6 years ago
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated last year
- Specific Transposable Element Aligner (HERV-K)☆16Sep 12, 2019Updated 6 years ago
- COMETgazer mehylation analysis software suite☆10Jul 21, 2019Updated 6 years ago
- fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"☆303Nov 14, 2025Updated 3 months ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆822Updated this week
- annotate a VCF with other VCFs/BEDs/tabixed files☆396Aug 30, 2025Updated 5 months ago
- a wee tool for random access into BGZF files.☆86May 10, 2018Updated 7 years ago
- ☆25Aug 1, 2022Updated 3 years ago
- filtering trio-based genetic variants in VCFs for clinical review☆21Aug 18, 2020Updated 5 years ago
- MPD client library in nim☆23Jul 24, 2025Updated 6 months ago