robertaboukhalil / alignment-sandbox
Tool for exploring sequence alignment algorithms
☆13Updated 2 months ago
Related projects ⓘ
Alternatives and complementary repositories for alignment-sandbox
- De novo VIral Genome Annotator☆21Updated 2 months ago
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12Updated 6 months ago
- software to identify primers that can distinguish genomes☆20Updated 2 weeks ago
- Remove human reads from a sequencing run☆24Updated last month
- Strain-level taxonomic classification of metagenomic data using pangenome graphs☆14Updated this week
- Code to create a PRG from a Multiple Sequence Alignment file☆22Updated 7 months ago
- MetagenOmic read Re-Assigner and abundance quantifier☆18Updated 5 months ago
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Updated 5 years ago
- mSWEEP High-resolution sweep metagenomics using fast probabilistic inference☆13Updated last month
- ☆19Updated 11 months ago
- Visualize microbial evolution at the SNP level!☆13Updated last week
- Paint genomes with taxa-specific k-mer probabilities☆15Updated 2 years ago
- Variant call verification☆15Updated last year
- Rapid discovery of reciprocal best blast pairs.☆10Updated 2 weeks ago
- HyGen: Compact and Efficient Genome Sketching using Hyperdimensional Vectors☆21Updated 2 months ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated last year
- Strain-level haplotyping for metagenomes with short or long-reads.☆41Updated 4 months ago
- process any file in tabular format. Fasta/fastq/GTF/GFF/VCF/SAM/BED☆21Updated this week
- Non-redundant pangenome assemblies from multiple genomes or bins☆13Updated 3 months ago
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆20Updated 8 months ago
- A bioinformatics tool written in Rust to find palindromic sequences in DNA☆24Updated 2 months ago
- A novel method for sequence similarity estimation☆26Updated 7 months ago
- MEMO: MEM-based pangenome indexing for k-mer queries☆16Updated 5 months ago
- Haplotype-aware genome assembly toolkit☆29Updated 4 years ago
- ☆16Updated last month
- Drug Resistance Prediction with Reference Graphs☆19Updated last year
- Read contamination removal☆24Updated 9 months ago
- transposable element typing pipeline☆17Updated 8 months ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆21Updated last year
- k-mers and the like☆15Updated this week