ipyigv
A Jupyter wrapper for the igv.js library (representation of genomic data) (by jupyter-widgets-contrib)
igv-notebook
Module for embedding igv.js in an IPython notebook (by igvteam)
| ipyigv | igv-notebook | |
|---|---|---|
| 1 | 1 | |
| 26 | 56 | |
| - | - | |
| 10.0 | 5.0 | |
| over 3 years ago | 9 months ago | |
| Python | JavaScript | |
| BSD 3-clause "New" or "Revised" 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.
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.
ipyigv
Posts with mentions or reviews of ipyigv.
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?
ipyigv is the lower level version of these. I found no documentation on how it's supposed to be used, but I'll try to get it to work as a last option, maybe raising a new webserver\docker container and supplying the files to it.
igv-notebook
Posts with mentions or reviews of igv-notebook.
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?
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.
What are some alternatives?
When comparing ipyigv and igv-notebook you can also consider the following projects:
tinycov - Command line tool to plot genomic coverage from a BAM file
igv-jupyter - Extension for Jupyter which integrates igv.js
pybamview - Browser based application for viewing bam alignments
dash-bio - Open-source bioinformatics components for Dash