bioinfologics / sdg
Sequence Distance Graph framework: graph + reads + mapping + analysis
☆25Updated 2 years ago
Alternatives and similar repositories for sdg:
Users that are interested in sdg are comparing it to the libraries listed below
- This repo is deprecated. Please use gfatools instead.☆16Updated 6 years ago
- Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]☆12Updated 11 months ago
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Updated 4 years ago
- Linear-time, low-memory construction of variation graphs☆19Updated 5 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆26Updated last year
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Updated 4 years ago
- Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.☆22Updated last year
- Hidden Markov Model based Copy number caller☆20Updated 3 months ago
- nimble aligner that will map your reads to the references on a laptop☆12Updated 7 years ago
- de Bruijn graph cOrrectiOn from graph aLignment☆11Updated 4 years ago
- the we-flyin WFA-guided ultralong tiling sequence aligner☆11Updated 3 years ago
- ☆14Updated 9 years ago
- Index and query k-mer matrices in BGZF☆12Updated 6 years ago
- ☆25Updated 3 years ago
- An experimental tool to find approximate max-cuts in a large graph☆11Updated 3 years ago
- Somatic (mosaic) SNV caller for 10X Genomics data using random forest classification and feature-based filters☆24Updated 5 years ago
- Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities☆25Updated 5 years ago
- Johns Hopkins University student-led genomics paper discussion group☆13Updated 4 years ago
- C++ library for analysing and storing large-scale cohorts of sequence variant data☆17Updated 5 years ago
- Variant call adjudication☆16Updated 8 months ago
- ☆16Updated 6 years ago
- SeqOthello supports fast coverage query and containment query.☆12Updated 5 years ago
- Accurate and fast taxonomic classification using pseudoaligning☆21Updated 7 years ago
- ☆28Updated last year
- a toolset for efficient analysis of 10X Genomics linked read data sets, in particular for de novo assembly☆15Updated 5 years ago
- Universal K-mer Hitting Set library in Rust☆10Updated 4 years ago
- An experimental tool to estimate the similarity between all pairs of contigs☆35Updated 3 years ago
- ☆12Updated 3 years ago
- GBWT-based handle graph☆31Updated this week