betteridiot / bamnosticLinks
a pure Python multi-version tolerant, runtime and OS-agnostic Binary Alignment Map (BAM) file parser and random access tool
☆98Updated last month
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
- Tip and tricks for BAM files☆86Updated 7 years ago
- Module for embedding igv.js in an IPython notebook☆76Updated 6 months ago
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆142Updated 2 months ago
- Web application to collect and visualise data across multiple MultiQC runs.☆97Updated 7 months ago
- A versatile tool to perform pile-up analysis on Hi-C data in .cool format.☆80Updated 9 months ago
- A C library for handling bigWig files☆80Updated 6 months ago
- Reference genome resource manager☆75Updated last year
- A utility for easy downloading of reads from next-gen sequencing repositories like NCBI SRA☆106Updated 5 years ago
- Snakemake-based workflow for detecting structural variants in genomic data☆80Updated 5 months ago
- phasing and Allele Specific Expression from RNA-seq☆116Updated last year
- Efficiently read and write sequencing data from Python☆65Updated 2 months 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
- BAM Statistics, Feature Counting and Annotation☆149Updated 3 weeks ago
- Read visualizer for structural variants☆84Updated 6 years ago
- ☆123Updated last week
- trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…☆93Updated 2 months ago
- Extract 3D contacts (.pairs) from sequencing alignments☆113Updated 3 weeks ago
- BigWig and BAM utilities☆97Updated last year
- A Python library to visualize and analyze long-read transcriptomes☆62Updated 3 months ago
- Frequently used commands in bioinformatics☆57Updated 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 last week
- A comprehensive cancer DNA/RNA analysis and reporting pipeline☆80Updated this week
- don't get DUP'ed or DEL'ed by your putative SVs.☆106Updated 4 years ago
- Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.☆36Updated last month
- An NGS read trimming tool that is specific, sensitive, and speedy. (production)☆122Updated 3 months ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆61Updated 9 months ago
- ExomeDepth R package for the detection of copy number variants in exomes and gene panels using high throughput DNA sequencing data.☆71Updated last month
- fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome☆150Updated last week
- 1D/2D indexing and querying on bgzipped text file with a pair of genomic coordinates☆89Updated 6 months ago