ErasmusMC-Bioinformatics / WeFaceNano
Nanopore plasmid pipeline (FAST5 basecalling, assembly, plasmid identification and antimicrobial resistance genes identification).
☆12Updated 3 years ago
Related projects ⓘ
Alternatives and complementary repositories for WeFaceNano
- deSAMBA: fast and accurate classification of metagenomics long reads with sparse approximate matches☆10Updated 6 months ago
- Code to create a PRG from a Multiple Sequence Alignment file☆22Updated 7 months ago
- kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding☆23Updated last year
- Paint genomes with taxa-specific k-mer probabilities☆8Updated 6 years ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated last year
- MegaPath-Nano: Accurate Compositional Analysis and Drug-level Antimicrobial Resistance Detection Software for Oxford Nanopore Long-read M…☆14Updated 2 years ago
- Find Unique genomic Regions☆29Updated this week
- ☆19Updated 11 months ago
- Output FASTQ summary statistics in JSON format☆29Updated 2 years ago
- Benchmark MinION assembler pipelines and publish your results in a heartbeat!☆15Updated 4 years ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Updated last year
- software to identify primers that can distinguish genomes☆20Updated 2 weeks ago
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 5 years ago
- ☆17Updated 5 months ago
- Read contamination removal☆24Updated 9 months ago
- mSWEEP High-resolution sweep metagenomics using fast probabilistic inference☆13Updated last month
- Strain-level taxonomic classification of metagenomic data using pangenome graphs☆14Updated this week
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆21Updated last year
- Non-redundant pangenome assemblies from multiple genomes or bins☆13Updated 3 months ago
- Fast and scalable nanopore adaptive sampling☆33Updated last year
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆22Updated last month
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 6 years ago
- Haplotype-aware genome assembly toolkit☆29Updated 4 years ago
- Drug Resistance Prediction with Reference Graphs☆19Updated last year
- In-depth characterization and annotation of differences between two sets of DNA sequences☆59Updated 4 years ago
- Remove human reads from a sequencing run☆24Updated last month
- Intra-species bacterial contamination detection☆22Updated this week
- ☆15Updated 6 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆41Updated 4 months ago
- transposable element typing pipeline☆16Updated 8 months ago