open2c / bioframe
Genomic interval operations on Pandas DataFrames
☆183Updated this week
Alternatives and similar repositories for bioframe:
Users that are interested in bioframe are comparing it to the libraries listed below
- The tools for your .cool's☆150Updated 6 months ago
- Extension for Jupyter which integrates igv.js☆154Updated 2 years ago
- Extract 3D contacts (.pairs) from sequencing alignments☆112Updated 3 months ago
- Module for embedding igv.js in an IPython notebook☆74Updated 3 months ago
- A declarative interactive genomics visualization library for Python.☆225Updated last week
- A cool place to store your Hi-C☆216Updated this week
- A modular Hi-C mapping pipeline☆94Updated 5 months ago
- Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)☆166Updated this week
- a python package for fast random access to sequences from plain and gzipped FASTA/Q files☆280Updated 4 months ago
- Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer☆59Updated last week
- A versatile tool to perform pile-up analysis on Hi-C data in .cool format.☆80Updated 6 months ago
- Analysis of Chromosome Conformation Capture data (Hi-C)☆99Updated last week
- A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM …☆194Updated last week
- HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.☆101Updated 5 months ago
- Jupyter notebook based genomic data visualization toolkit.☆237Updated last month
- Lightweight converter between hic and cool contact matrices.☆73Updated 9 months ago
- HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.☆246Updated 5 months ago
- Publication quality NGS track plotting☆111Updated 2 years ago
- Fast alignment and preprocessing of chromatin profiles☆199Updated 5 months ago
- Quantification of transposable element expression using RNA-seq☆69Updated last year
- dcHiC: Differential compartment analysis for Hi-C datasets☆68Updated last year
- machine-readable file format for genomic library sequence and structure☆120Updated last month
- Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders☆144Updated 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…☆89Updated last month
- Detection of m6A from direct RNA-Seq data☆121Updated last month
- ☆91Updated this week
- Sequana: a set of Snakemake NGS pipelines☆146Updated 2 months ago
- Match up paired end fastq files quickly and efficiently.☆149Updated 11 months ago
- Pairwise whole genome aligner☆151Updated last week
- Config files used to define parameters specific to compute environments at different Institutions☆99Updated this week