orangeSi / GSSplaygroundLinks
Lightweight single-html-file-based Genome Segments playground for Visualize genome features cluster(gene arrow map or other features), add synteny among genome fragments or add crosslink among features, add short(PE/MP)/long reads(pacbio or nanopore) mapping or snpindel in vcf(not support complex sv yet), support all CIGAR of sam alignment, dire…
☆33Updated 5 years ago
Alternatives and similar repositories for GSSplayground
Users that are interested in GSSplayground are comparing it to the libraries listed below
Sorting:
- Converting and demultiplexing of PacBio BAM files into gzipped fasta and fastq files.☆38Updated 2 years ago
- Exact Tandem Repeat Finder (not a TRF replacement)☆49Updated 5 years ago
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆29Updated 9 months ago
- SAMStat displays various properties of next-generation sequencing reads stored in SAM/BAM format.☆24Updated 2 years ago
- Improved Phased Assembler☆28Updated 3 years ago
- Segmental Duplication Assembler (SDA).☆44Updated 2 years ago
- Symmetric DUST for finding low-complexity regions in DNA sequences☆45Updated 2 months ago
- CNEFinder: Finding Conserved Non-coding Elements in Genomes☆24Updated 4 years ago
- VACmap: a long-read aligner specifically designed for complex structural variation discovery☆36Updated 2 months ago
- Method for inferring path posterior probabilities and abundances from pangenome graph read alignments☆57Updated 3 weeks ago
- Structural variant caller☆55Updated 3 years ago
- Genome assembly soft-masking using Red (REpeat Detector)☆18Updated 6 years ago
- Working space for the GIAB TR benchmarking project☆21Updated 11 months ago
- MapCaller – An efficient and versatile approach for short-read alignment and variant detection in high-throughput sequenced genomes☆30Updated 4 years ago
- Compute N50/NG50 and auN/auNG☆32Updated last year
- scripts to parse and analyse MCScanX collinearity output☆32Updated 5 years ago
- Toolkit for genome-wide analysis of tandem repeats☆58Updated last month
- Split-read pipeline for the identification of non-reference TE insertions with TSDs☆25Updated 5 years ago
- ☆31Updated 5 years ago
- Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads☆21Updated 3 years ago
- Yet another Hi-C scaffolding tool☆22Updated 11 months ago
- Generate unique KMERs for every contig in a FASTA file☆48Updated 3 years ago
- ☆36Updated last year
- In-depth characterization and annotation of differences between two sets of DNA sequences☆62Updated 5 years ago
- Pipeline for de novo clustering of long transcriptomic reads☆26Updated 3 years ago
- ☆30Updated 4 years ago
- SV genotyping with long reads☆39Updated 2 years ago
- Long read alignment analysis. Generate a reports on sequence alignments for mappability vs read sizes, error patterns, annotations and r…☆49Updated 7 years ago
- A genome annotation pipeline that use short and long sequencing reads alignments from animal genomes☆30Updated last year
- Alignment-free genotyper for SNPs and short indels, implemented in Python.☆51Updated 6 months ago