fedarko / strainFlyeLinks
Pipeline for analyzing (rare) mutations in metagenome-assembled genomes
☆10Updated 6 months ago
Alternatives and similar repositories for strainFlye
Users that are interested in strainFlye are comparing it to the libraries listed below
Sorting:
- Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.☆21Updated last year
- Variant call adjudication☆16Updated last year
- SeqWho - A reliable and rapid FASTQ(A) file classifier☆10Updated 3 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Updated 2 years ago
- Dynamic programming for aa-to-nt alignment with affine gap, splicing and frameshift☆19Updated last year
- Coronavirus (SARS-Cov-2) sequencing analysis☆10Updated 4 years ago
- Importing vg json graphs to Python data structures.☆11Updated 4 years ago
- Hidden Markov Model based Copy number caller☆20Updated 11 months ago
- ClaMSA (Classify Multiple Sequence Alignments).☆13Updated 10 months ago
- This is the GPress, a framework for querying GTF, GFF3 and expression files in a compressed form.☆12Updated 2 years ago
- A minimap2 implementation with binseq inputs☆16Updated 2 months ago
- JTK -- a regional diploid genome assembler☆25Updated 11 months ago
- Removing PCR duplicates for sequencing reads.☆14Updated 5 years ago
- MEM mapper prototype☆13Updated 4 years ago
- A k-mer-based maximum likelihood method for estimating distances of reads to genomes and phylogenetic placement.☆16Updated last month
- run-length BWT tools for genomic sequences☆19Updated 3 years ago
- ☆12Updated 2 years ago
- k-mer similarity analysis pipeline☆23Updated 3 months ago
- ☆14Updated 2 years ago
- A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.☆18Updated last month
- Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.☆11Updated 3 months ago
- A k-mer search engine for all Sequence Read Archive public accessions☆35Updated 11 months ago
- MEMO: MEM-based pangenome indexing for k-mer queries☆18Updated last year
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Updated 2 months ago
- GBWT-based handle graph☆31Updated last week
- HAT is a set of tools for calling de novo variants from whole-genome sequencing data.☆24Updated last year
- End-guided RNA assembler☆15Updated last month
- A command line tool (in Kotlin/JVM) for intuitively visualizing BAM alignments. (Currently unmaintained)☆10Updated last year
- ☆18Updated 8 months ago
- syncmer graphs, and perhaps other sorts of sequence graphs☆21Updated 6 months ago