mosdepth
fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing (by brentp)
Neel
A Nim library for making Electron-like HTML/JS GUI apps, with full access to Nim capabilities. (by Niminem)
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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.
mosdepth
Posts with mentions or reviews of mosdepth.
We have used some of these posts to build our list of alternatives
and similar projects.
- Calculating Average Coverage or Read Depth for a Sequence (WES)
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Why is bedtools genomecov giving me a blank output file?
I'm not sure why that happens, but an alternative to bedtools genomecov is mosdepth. Maybe you can try that tool instead as it's very reliable.
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Is there a tool that quantifies “spatial coverage”, that is what percentage of a reference assembly has a read mapped to it?
I would give mosdepth a look. It can provide depth across a chromosome/contig at each base, or a mean depth for a given window size (eg 1kb), or regions provided within a bed file, or a simple summary of the mean depth across each chromosome/contig.
Neel
Posts with mentions or reviews of Neel.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-03-07.
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Is Nim right for me?
I made the Nim equivalent to Python's Eel library called Neel. There are other GUI libraries out there but this is about as simple as it gets. It's only dependency is having chrome installed on your machine. Write your frontend in javascript (or just use Nim and compile to javascript) and backend in Nim. The executables are fast and extremely tiny. It'll embed your assets into the binary too so no dependency/linking BS. If you're on Mac, you can package it into an App too rather than just the executable. See the repo for more details.
What are some alternatives?
When comparing mosdepth and Neel you can also consider the following projects:
nimbus-eth1 - Nimbus: an Ethereum Execution Client for Resource-Restricted Devices
godot-nim - Nim bindings for Godot Engine
nim-plotly - plotly wrapper for nim-lang
ImThemes - Dear ImGui style browser and editor written in Nim
moe - A command line based editor inspired by Vim. Written in Nim.
INim - Interactive Nim Shell / REPL / Playground
Eel - A little Python library for making simple Electron-like HTML/JS GUI apps
Unchained - A fully type safe, compile time only units library.
nim-dnsprotocol - Domain Name System (DNS) protocol for Nim programming language
adventofcode2022 - Advent of Code 2022 solutions in Nim
Datamancer - A dataframe library with a dplyr like API