mskilab-org / gGnome
R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
☆39Updated 3 months ago
Related projects ⓘ
Alternatives and complementary repositories for gGnome
- ☆21Updated 2 weeks ago
- Pipeline for structural variation detection in cohorts☆48Updated 3 years ago
- ☆51Updated 5 years ago
- Immuological gene typing and annotation for genome assembly☆31Updated last month
- Software to assemble contigs/scaffolds into chromosomes using Hi-C data☆27Updated last month
- novoBreak: local assembly for breakpoint detection in cancer genomes☆26Updated 6 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆41Updated 2 years ago
- Tools for processing and analyzing structural variants.☆32Updated 9 years ago
- Third-generation fusion gene detection☆13Updated last year
- Identify and annotate TE-mediated insertions in long-read sequence data☆40Updated last year
- TEMP is a software package for detecting transposable elements (TEs) insertions and excisions from pooled high-throughput sequencing dat…☆21Updated 7 years ago
- Adapters for trimming☆30Updated 5 years ago
- BISulfite-seq CUI Toolkit☆17Updated 3 weeks ago
- Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata☆56Updated 2 years ago
- Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation☆22Updated 5 years ago
- Structural variant merging tool☆46Updated 3 months ago
- Genomic Association Tester☆29Updated last year
- Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA☆25Updated 5 months ago
- Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses☆31Updated 2 years ago
- Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.☆24Updated 9 years ago
- A set of tools to annotate VCF files with expression and readcount data☆25Updated 2 months ago
- Exact Tandem Repeat Finder (not a TRF replacement)☆46Updated 5 years ago
- Code for phasing SVs with SNPs☆52Updated 4 years ago
- ☆39Updated 2 months ago
- ☆33Updated last year
- Sashimi plots for RNA-seq data using detected transcripts☆27Updated 3 weeks ago
- SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …☆38Updated 2 months ago
- An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.☆53Updated last month
- heuristics to merge structural variant calls in VCF format.☆35Updated 8 years ago
- Evolutionary Transcriptomics with R☆41Updated this week