igvteam / igv-notebookLinks
Module for embedding igv.js in an IPython notebook
☆80Updated 11 months ago
Alternatives and similar repositories for igv-notebook
Users that are interested in igv-notebook are comparing it to the libraries listed below
Sorting:
- trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…☆99Updated last month
- A comprehensive cancer DNA/RNA analysis and reporting pipeline☆98Updated last week
- Frequently used commands in bioinformatics☆58Updated last year
- Snakemake-based workflow for detecting structural variants in genomic data☆82Updated 11 months ago
- a pure Python multi-version tolerant, runtime and OS-agnostic Binary Alignment Map (BAM) file parser and random access tool☆98Updated 6 months ago
- liftover for python, made fast with cython☆95Updated 3 months ago
- Config files used to define parameters specific to compute environments at different Institutions☆107Updated last week
- Extract 3D contacts (.pairs) from sequencing alignments☆123Updated last week
- Tip and tricks for BAM files☆86Updated 7 years ago
- ClairS-TO - a deep-learning method for tumor-only somatic variant calling☆77Updated 2 months ago
- CrossMap is a python program to lift over genome coordinates from one genome version to another.☆92Updated 2 months ago
- A Python library to visualize and analyze long-read transcriptomes☆65Updated 8 months ago
- HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.☆107Updated 7 months ago
- Lightweight converter between hic and cool contact matrices.☆74Updated last year
- 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 versatile tool to perform pile-up analysis on Hi-C data in .cool format.☆80Updated last year
- Reference genome resource manager☆74Updated last month
- Publication quality NGS track plotting☆117Updated 3 months ago
- Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders☆159Updated 3 weeks ago
- Merging paired-end reads and removing adapters☆46Updated 2 months ago
- Tools for making plots of genomic datasets in a genome-browser-like format☆33Updated last year
- igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"☆131Updated 3 months ago
- fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome☆157Updated 5 months ago
- dcHiC: Differential compartment analysis for Hi-C datasets☆74Updated 2 years ago
- Snakemake profile for running jobs on an LSF cluster☆38Updated last year
- Quantification of transposable element expression using RNA-seq☆78Updated last year
- Analysis software for Nanorate Sequencing (NanoSeq) experiments☆31Updated last month
- ClassifyCNV: a tool for clinical annotation of copy-number variants☆69Updated 2 years ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆64Updated last year
- Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq☆88Updated this week