ChristopherWilks / megadepthView external linksLinks
BigWig and BAM utilities
☆102Mar 26, 2024Updated last year
Alternatives and similar repositories for megadepth
Users that are interested in megadepth are comparing it to the libraries listed below
Sorting:
- a toolset for efficient analysis of 10X Genomics linked read data sets, in particular for de novo assembly☆15Nov 27, 2019Updated 6 years ago
- MEM mapper prototype☆13Nov 28, 2020Updated 5 years ago
- Hidden Markov Model based Copy number caller☆20Dec 9, 2025Updated 2 months ago
- seqcover allows users to view coverage for hundreds of genes and dozens of samples☆52Apr 9, 2021Updated 4 years ago
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆143Aug 24, 2025Updated 5 months ago
- Implicit Interval Tree with Interpolation Index☆42Jul 13, 2022Updated 3 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 2 years ago
- A read extraction and realignment tool for next generation sequencing data☆104Oct 29, 2022Updated 3 years ago
- Unfazed by genomic variant phasing☆27May 26, 2024Updated last year
- An efficient index for the colored, compacted, de Bruijn graph☆111Oct 7, 2024Updated last year
- The python binding for D4 format☆16Oct 22, 2021Updated 4 years ago
- ☆21Dec 26, 2025Updated last month
- Genome inference from a population reference graph☆96Apr 1, 2025Updated 10 months ago
- An experimental tool to estimate the similarity between all pairs of contigs☆40Apr 12, 2021Updated 4 years ago
- ⛰ covtobed | Convert the coverage track from a BAM file into a BED file☆44Nov 6, 2025Updated 3 months ago
- Detects human contamination in bam files☆16Sep 10, 2020Updated 5 years ago
- Symmetric DUST for finding low-complexity regions in DNA sequences☆45Jul 24, 2025Updated 6 months ago
- Filter of Pairwise Alignement☆44Jan 31, 2022Updated 4 years ago
- expressions on VCFs☆91Apr 19, 2025Updated 9 months ago
- SeqOthello supports fast coverage query and containment query.☆12May 8, 2019Updated 6 years ago
- Simplifies parallel processing of DNA sequencing reads☆10Feb 3, 2026Updated last week
- Genomic VCF to tab-separated values☆48Mar 9, 2023Updated 2 years ago
- Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata☆58Feb 17, 2022Updated 3 years ago
- Filtering and profiling of next-generational sequencing data using region-specific rules☆79Oct 30, 2023Updated 2 years ago
- Per-base per-nucleotide depth analysis☆146Feb 4, 2026Updated last week
- The D4 Quantitative Data Format☆169Nov 28, 2025Updated 2 months ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Aug 4, 2021Updated 4 years ago
- Exact Tandem Repeat Finder (not a TRF replacement)☆51Oct 22, 2019Updated 6 years ago
- IndexTools is a toolkit for extremely fast NGS analysis based on index files.☆17Aug 19, 2022Updated 3 years ago
- Coronavirus (SARS-Cov-2) sequencing analysis☆10Oct 5, 2021Updated 4 years ago
- A fast K-mer counter for high-fidelity shotgun datasets☆140Jan 19, 2026Updated 3 weeks ago
- Long read aligner☆114May 26, 2023Updated 2 years ago
- GBWT-based handle graph☆31Updated this week
- vembrane filters VCF records using python expressions☆68Jan 8, 2026Updated last month
- Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long read…☆12Jan 22, 2020Updated 6 years ago
- Yet Another Chimeric Read Detector☆85Nov 7, 2024Updated last year
- nimble aligner that will map your reads to the references on a laptop☆11Jun 29, 2017Updated 8 years ago
- Lift-over alignments from variant-aware references☆34Mar 4, 2023Updated 2 years ago
- Reducing reference bias using multiple population reference genomes☆34May 27, 2024Updated last year