igv-jupyter vs pybamview

igv-jupyter

Extension for Jupyter which integrates igv.js (by g2nb)

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pybamview

Browser based application for viewing bam alignments (by mgymrek)

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igv-jupyter		pybamview
	Project
1	Mentions	1
154	Stars	56
0.0%	Growth	-
1.8	Activity	10.0
over 1 year ago	Latest Commit	over 7 years ago
JavaScript	Language	Python
MIT License	License	MIT License

The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.

igv-jupyter

Posts with mentions or reviews of igv-jupyter. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2023-06-30.

Bam viewer with custom fasta reference that's embeddable in Streamlit app?
6 projects | /r/bioinformatics | 30 Jun 2023

igv-notebook and igv-jupyter seem amazing but (unsurprisingly) I could not get them to run anywhere that wasn't a jupyter notebook. I get a kernel error as it tries to initialize itself within streamlit, and I'm not sure how to embed it anywhere else.

pybamview

Posts with mentions or reviews of pybamview. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2023-06-30.

Bam viewer with custom fasta reference that's embeddable in Streamlit app?
6 projects | /r/bioinformatics | 30 Jun 2023

pybamview is very old, requires python 2.6 and doesen't provide and API, so it requires CLI calls to be performed from my scripts.

What are some alternatives?

When comparing igv-jupyter and pybamview you can also consider the following projects:

configurable-http-proxy - node-http-proxy plus a REST API

ipyigv - A Jupyter wrapper for the igv.js library (representation of genomic data)

tinycov - Command line tool to plot genomic coverage from a BAM file

igv-notebook - Module for embedding igv.js in an IPython notebook

dash-bio - Open-source bioinformatics components for Dash

kuwala - Kuwala is the no-code data platform for BI analysts and engineers enabling you to build powerful analytics workflows. We are set out to bring state-of-the-art data engineering tools you love, such as Airbyte, dbt, or Great Expectations together in one intuitive interface built with React Flow. In addition we provide third-party data into data science models and products with a focus on geospatial data. Currently, the following data connectors are available worldwide: a) High-resolution demographics data b) Point of Interests from Open Street Map c) Google Popular Times

ipyleaflet - A Jupyter - Leaflet.js bridge