igv-notebook
Module for embedding igv.js in an IPython notebook (by igvteam)
pybamview
Browser based application for viewing bam alignments (by mgymrek)
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| igv-notebook | pybamview | |
|---|---|---|
| 1 | 1 | |
| 56 | 56 | |
| - | - | |
| 5.0 | 10.0 | |
| 8 months ago | over 7 years ago | |
| JavaScript | Python | |
| MIT 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.
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.
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?
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-notebook and pybamview you can also consider the following projects:
igv-jupyter - Extension for Jupyter which integrates igv.js
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