betteridiot / bamnosticLinks
a pure Python multi-version tolerant, runtime and OS-agnostic Binary Alignment Map (BAM) file parser and random access tool
☆98Updated 2 months ago
Alternatives and similar repositories for bamnostic
Users that are interested in bamnostic are comparing it to the libraries listed below
Sorting:
- Very simple, pure python, BAM file reader☆79Updated 6 years ago
- Module for embedding igv.js in an IPython notebook☆78Updated 7 months ago
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆142Updated 3 weeks ago
- A C library for handling bigWig files☆81Updated 8 months ago
- ExomeDepth R package for the detection of copy number variants in exomes and gene panels using high throughput DNA sequencing data.☆73Updated 2 months ago
- Read visualizer for structural variants☆84Updated 7 years ago
- A utility for easy downloading of reads from next-gen sequencing repositories like NCBI SRA☆107Updated last month
- BigWig and BAM utilities☆97Updated last year
- Reference genome resource manager☆74Updated last year
- Tip and tricks for BAM files☆86Updated 7 years ago
- Efficiently read and write sequencing data from Python☆66Updated 2 weeks ago
- A versatile tool to perform pile-up analysis on Hi-C data in .cool format.☆80Updated 10 months ago
- Snakemake-based workflow for detecting structural variants in genomic data☆80Updated 7 months ago
- Web application to collect and visualise data across multiple MultiQC runs.☆95Updated 9 months ago
- A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM …☆194Updated 2 weeks ago
- Extract 3D contacts (.pairs) from sequencing alignments☆116Updated last month
- igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"☆129Updated 2 years ago
- sam2pairwise takes a SAM file and uses the CIGAR and MD tag to reconstruct the pairwise alignment of each read.☆44Updated 10 years ago
- A Python library to visualize and analyze long-read transcriptomes☆63Updated 4 months ago
- A suite of tools for detecting expansions of short tandem repeats☆82Updated 2 years ago
- ClassifyCNV: a tool for clinical annotation of copy-number variants☆66Updated 2 years ago
- Snakemake profile for running jobs on an LSF cluster☆38Updated last year
- TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C☆111Updated 4 years ago
- Experimental features for Nextflow☆44Updated last month
- trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…☆97Updated last week
- phasing and Allele Specific Expression from RNA-seq☆116Updated last year
- BAM Statistics, Feature Counting and Annotation☆150Updated this week
- Scallop is a reference-based transcriptome assembler for RNA-seq☆90Updated 4 years ago
- Pure-python implementation of UCSC liftOver genome coordinate conversion☆97Updated last year
- Per-base per-nucleotide depth analysis☆137Updated last month