ideogram
yadm
Our great sponsors
ideogram | yadm | |
---|---|---|
3 | 81 | |
277 | 4,779 | |
- | - | |
9.2 | 2.4 | |
3 months ago | 2 months ago | |
JavaScript | Python | |
GNU General Public License v3.0 or later | GNU General Public License v3.0 only |
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.
ideogram
-
New CRISPR-based map ties every human gene to its function
> Where are the polished, powerful design tools for biology
User interfaces for biology have drastically improved over the last 10 years.
Domain-specific tools like genome browsers, protein viewers, or phylogenetic explorers [1-3] almost all look and feel a lot better than they did in 2012.
The biggest exception here is UCSC Genome Browser, which has an old-school design and web technology stack. That said, it's steadily added features over the years, has substantially sleekened UX in its periphery, and remains widely used.
There are also bespoke visual design resources for biology applications that are good and getting better, like BioRender and PhyloPic [4-5]. There are multi-tiered packages like Dash Bio that wrap biology components together. There's Blender biology community, too!
---
1. Genome browsers and components: https://jbrowse.org/jb2/, https://www.ncbi.nlm.nih.gov/genome/gdv, https://igv.org/app, https://eweitz.github.io/ideogram
2. Protein viewers: https://pymol.org/, https://nglviewer.org/ngl/
3. Phylogenetic explorers: https://clades.nextstrain.org/
4. https://biorender.com/
5. http://phylopic.org/
6. https://github.com/plotly/dash-bio, https://dash.gallery/Portal/?search=[Pharma]
-
Why IndexedDB is slow and what to use instead
I'm more interested in read speeds than write speeds. I have about 2 MB of data that I fetch, then parsed and transformed into a heavily nested object for easy look-up by various types of keys.
In my brief experiment, it was 12% faster to read from the web Cache API, re-parse and re-transform that heavily nested object than to read the fully transformed object via IndexedDB. That surprised me! My understanding is that IndexedDB does a structured clone as part of the read, which I suspect is the main cause of slowness of IndexedDB relative to the Cache API approach in my use case.
Related commits to reproduce that finding are in [1], specifically [2].
[1] https://github.com/eweitz/ideogram/pull/285
-
Ask HN: What are some tools / libraries you built yourself?
I created Ideogram.js, a JavaScript library for chromosome visualization [1]. Ideogram supports drawing and animating genome-wide datasets, enabling a variety of genomic views [3].
[1] https://github.com/eweitz/ideogram
[2] https://eweitz.github.io/ideogram
yadm
- Yadm: Yet Another Dotfiles Manager
- YADM: Yet Another Dotfiles Manager
-
Ask HN: What Underrated Open Source Project Deserves More Recognition?
Everyone hand-rolls their own dotfile management system, but YADM already does everything you need:
https://yadm.io/
- Yet Another Dotfiles Manager
- Tell HN: My Favorite Tools
-
Dotfiles Matter
I've been working around this using tools built on top of git like [yadm](https://github.com/TheLocehiliosan/yadm) and relying on `ls-files` to list all my tracked dotfiles and their paths.
Still having everything in one place would make things much simpler. Great idea!
-
System settings that aren’t in System Settings
I wonder if the program i use to manage my dotfiles could help manage your scripts and extend your setup to all your desktops? Its called yadm (https://yadm.io/) it makes it so easy to have a laptop and a desktop or two.
-
The right way to keep config files synced across devices?
I really like that one but still prefer yadm because you can just edit your files as usual and then yadm add them wherever you are.
-
Just got a new M2 Pro after my 2016 became outdated. What are your first steps to setting up a new computer?
If you haven’t already, this is the time to install a tool like yadm and get your computer configuration into version control. Your command-line tools can be managed by yadm directly, your system settings can mostly be managed with a yadm bootstrap script that runs things like defaults write, and the software you install can be managed with a Brewfile that the yadm bootstrap script uses to install software with Homebrew. Don’t manually download Xcode, use xcodes to do it.
-
System 76 Linux script to set up a new PC including the personal profile and prefered software installs
I personally use YADM. It's basically a git repo on my home folder, that only tracks what I explicitly set. And you can setup bootstraps to do what you said, install a bunch of stuff or make custom changes. In it's essence, it's a set of bash/sh files that are executed sequentially when you launch the yadm bootstrap command.
What are some alternatives?
genetic-origins-heatmap - Use your DNA data (e.g. from 23andMe) to paint a global heatmap of your origins.
GNU Stow - GNU Stow - mirror of savannah git repository occasionally with more bleeding-edge branches
GoJS, a JavaScript Library for HTML Diagrams - JavaScript diagramming library for interactive flowcharts, org charts, design tools, planning tools, visual languages.
chezmoi - Manage your dotfiles across multiple diverse machines, securely.
absurd-sql - sqlite3 in ur indexeddb (hopefully a better backend soon)
Home Manager using Nix - Manage a user environment using Nix [maintainer=@rycee]
localForage - 💾 Offline storage, improved. Wraps IndexedDB, WebSQL, or localStorage using a simple but powerful API.
dotbot - A tool that bootstraps your dotfiles ⚡️
rupy - HTTP App. Server and JSON DB - Shared Parallel (Atomic) & Distributed
homesick - Your home directory is your castle. Don't leave your dotfiles behind.
lowdefy - The config web stack for business apps - build internal tools, client portals, web apps, admin panels, dashboards, web sites, and CRUD apps with YAML or JSON.
Ansible - Ansible is a radically simple IT automation platform that makes your applications and systems easier to deploy and maintain. Automate everything from code deployment to network configuration to cloud management, in a language that approaches plain English, using SSH, with no agents to install on remote systems. https://docs.ansible.com.