(a) (p)erfect (c)ircle? ... tests DNA sequences for overlapping ends, then trims and rejoins, and aligns reads to test the join
☆11Apr 29, 2021Updated 4 years ago
Alternatives and similar repositories for apc
Users that are interested in apc are comparing it to the libraries listed below
Sorting:
- Long read to reference genome mapping tool☆13Mar 14, 2024Updated last year
- Very very long reads, indeed☆13Apr 30, 2017Updated 8 years ago
- Pipeline to generate NGS reads from a phylogeny☆39Sep 13, 2022Updated 3 years ago
- Convenience function for quick and dirty data analysis☆69Oct 30, 2017Updated 8 years ago
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Dec 5, 2018Updated 7 years ago
- in silico plasmid extraction☆13Sep 18, 2017Updated 8 years ago
- Classify sequencing reads using MinHash.☆48Apr 6, 2020Updated 5 years ago
- Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)☆37Jan 7, 2026Updated last month
- Parallel implementation of the LAST aligner☆18Nov 27, 2016Updated 9 years ago
- This project contains simple methods to measure sample relatedness and identify potential swaps and contamination☆10Jan 8, 2016Updated 10 years ago
- Introduction to Nanopore Sequencing - Prac material and presentations from The Omics Australia Tutorials Sydney (TOAST) workshop 19th - 2…☆10Jan 12, 2019Updated 7 years ago
- A tool to reduce the size of Oxford Nanopore Technologies' datasets without losing information☆30Dec 13, 2023Updated 2 years ago
- Improved multi-sample transcript abundance estimates using adaptive priors☆20Oct 29, 2018Updated 7 years ago
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Jan 9, 2021Updated 5 years ago
- Detect contigs of complete circular genomes☆23Jun 6, 2019Updated 6 years ago
- SAMsift: advanced filtering and tagging of SAM/BAM alignments using Python expressions.☆23Sep 18, 2025Updated 5 months ago
- Scaffolding of genomic assemblies with RNA seq data☆15Oct 8, 2015Updated 10 years ago
- Fast tool to build the core genome of prokaryotic genomes. Can handle large datasets. Dependencis: Usearch & Numpy☆10Nov 26, 2025Updated 3 months ago
- Module to determine where repeats are and make soft-masks of said☆10Mar 14, 2024Updated last year
- Genetic coordinates so simple, it feels like MAGIC!☆10Jan 29, 2026Updated 3 weeks ago
- Faster multispecies coalescent inference using multilocus data☆14Aug 13, 2023Updated 2 years ago
- Annotate your metagenome assemblies☆11Jul 19, 2018Updated 7 years ago
- A utility for splitting mixed origin NGS reads☆10Jun 1, 2021Updated 4 years ago
- Source code for the program MavericK, described fully at www.bobverity.com/maverick☆12Jun 21, 2018Updated 7 years ago
- de novo targeted gene assembly☆22Apr 16, 2021Updated 4 years ago
- SaffronTree: Reference free rapid phylogenetic tree construction from raw read data☆25Jun 11, 2020Updated 5 years ago
- Find Unique genomic Regions☆32Jan 26, 2026Updated last month
- Filter of Pairwise Alignement☆44Jan 31, 2022Updated 4 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆49Jan 14, 2026Updated last month
- Normalization and difference calling for Next Generation Sequencing (NGS) data via joint multinomial modeling.☆11Oct 8, 2021Updated 4 years ago
- semi-reference-based short read compression☆11Mar 5, 2019Updated 6 years ago
- Assessing the quality of prokaryotic genomes, filtering and dereplication☆11Aug 26, 2022Updated 3 years ago
- ☆11Dec 24, 2024Updated last year
- Homebrew formulae for bioinformatics software only available for Linux☆27Aug 23, 2019Updated 6 years ago
- Simple tool to verticalize text delimited files.☆37May 6, 2024Updated last year
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆46Jan 18, 2019Updated 7 years ago
- Compare different genome alignment tools using a wide range of genomes with different complexities.☆14Dec 3, 2022Updated 3 years ago
- Iterative error correction of long reads☆13Dec 9, 2022Updated 3 years ago
- libstrbuf: A powerful string library for C☆17Oct 15, 2016Updated 9 years ago