
Wanjun Gu
23 posts

Wanjun Gu
@WanjunGu1
Biomedical informatics PhD student @ UCSF; Data Scientist @ Steps2Walk. Passionate about health, omics, epidemiology and statistical programming
San Francisco, CA Katılım Mayıs 2022
55 Takip Edilen18 Takipçiler

@talraviv Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs.
broccolito.github.io/bioscratch-lan…
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A year ago, "agent harness" was tools in a loop. In 2026, AI agent harness companies (Claude, Cursor, Codex, etc) are competing on:
• How you can call your agent (local computer, mobile remote, messaging apps, tag in slack)
• How it calls itself automatically (heartbeats, Cursor automations)
• UI for humans (From Cursor's excellent accept/undo/revert interface, to Claude Cowork, to how easy it is to install MCPs in Claude desktop)
• Where it runs (was always local, now we have cloud agents on github)
• Support for skills (to catch up, Cursor peers into Claude Code's folders)
• Keeping context clean with subagents (I love Cursor's use of Opus to prompt the cheap/fast Composer - they make a great team)
• Smart context editing (not just blunt compaction at blunt milestones)
I'm sure a bunch are slipping my mind. What else should be on this list?
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@milesdeutscher Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs.
broccolito.github.io/bioscratch-lan…
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Claude Code is going mega viral on X.
You probably feel overwhelmed with all the content.
Don't read it all - instead, just read this one article.
I filtered down the 1% of content/tools/resources that are actually worth your time (part two).
Guarantee you'll extract alpha.
AI Edge@aiedge_
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@ghumare64 Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs.
broccolito.github.io/bioscratch-lan…
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If you’re building AI agents with Claude Code in 2026, start here and thank me later.
x.com/affaanmustafa/…
cogsec@affaan
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@tom_doerr Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs.
broccolito.github.io/bioscratch-lan…
English

@wesbos Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs. broccolito.github.io/bioscratch-lan…
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@kepano Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs. broccolito.github.io/bioscratch-lan…
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Nice to see Google Docs rolling out better Markdown support.
If you use Obsidian this will make it easier to collaborate with your coworkers who need to use Docs. I ran into this often at my previous company when working on blog posts and internal memos.
Next, I'd love to see Google add support for copy/pasting Markdown

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@kepano Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs. broccolito.github.io/bioscratch-lan…
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here you go... next version of Obsidian Web Clipper has nice Markdown export for Claude and ChatGPT out of the box
Andrej Karpathy@karpathy
@tylerangert @OpenAI @AnthropicAI 💯 I especially need this for Deep Research, which I very often want to export as markdown into an Obsidian note for later reference. I spent 1 hour the other day trying to write this, then 1 hour searching for someone who surely has done it already, but now I'm stuck.
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@oran_ge Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs. broccolito.github.io/bioscratch-lan…
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MarkDown 已经成为我的生活中最重要的文件格式了。
Typora 虽然是非常好的 MD 编辑器,但是有个很大的痛点:
每次 Agent 改完文件,都要手动关掉再打开才能看到变化。
这个操作一天要重复几十次,很烦。
今天决定自己解决这个问题,开发了一个新的编辑器 ColaMD:
Agent 在后台改你的 .md 文件,你眼前的内容实时刷新。
就像是在看 Agent 现场写作,体验彻底改变。
相比其他编辑器的 区别?
- Obsidian 功能强大但太重了,我只是想看一个 .md 文件,不需要打开一整个知识库。
- Typora 是我用过体验最好的编辑器,但它不支持文件被外部修改后实时刷新
- 其他付费软件,Markdown 是一个基础格式,免费的编辑器也应该更加普及。
所以 ColaMD 的定位就是:
一个轻量的、免费的、为 Agent 时代设计的 Markdown 编辑器。
没有文件管理,没有知识库,没有插件系统,没有 AI 功能。
对了,icon 设计了 20 版,最后选了一个极简的版本,希望你能喜欢。
MIT 开源,免费,macOS / Windows / Linux 都能用。
GitHub 地址:github.com/marswaveai/Col…
好记的域名:ColaMD.com

中文

@_overment Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs. broccolito.github.io/bioscratch-lan…
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I have tested nearly every markdown editor available on the market, as ~95% of my work now takes place in markdown files.
Top picks are:
- iA Writer remains a leader because it is the most reliable, offering a clean design and only the most essential features. While I wish for more styling configuration options, the writing experience here is the best. I do not know what kind of voodoo they do, but it works.
- Obsidian is the second most reliable option for markdown editing. It simply works. However, for some reason, the writing experience in Obsidian feels significantly worse than in iA Writer. While this may be subjective, it relates to the smallest details of the typing experience. Obsidian improves a lot after customization, which has now made it the #1 app in my personal rankings. I list it second only because I have been working with it this way for a relatively short time.
- Paper is another app that I have truly enjoyed. In fact, I enjoyed it the most initially, but in the long run, it has proven unreliable due to quirks such as formatting breaks when pasting links or images. Additionally, the file management feels limited, as there is almost no way to organize or jump between files while writing. Regardless, the vibe of this app is excellent, and I wish the creator the best for their outstanding work.
- Following its recent updates, Typora seems like a strong candidate for the #1 spot, though the available dark themes could be much better. It also features a minimal file explorer, which is a nice addition. Typora is a great choice, especially if you are looking for a quality writing experience that is comparable to iA Writer in several aspects.
Overall, I believe there is space for a @screenstudio quality app built for the AI era, or perhaps more accurately, the "markdown era"
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@burkov Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs. broccolito.github.io/bioscratch-lan…
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Some said in the comments that ChapterPal is "too simple" for 5 months of work. Let's count features:
1. A WYSIWYG Markdown editor that has all the same features as the best commercial editors like Typora, but supports a wider range of non-standard elements like admonitions, LaTeX tables, multi-type figures (like a figure with both code and image).
2. A markdown parser that supports the same non-standard markdown features as the WYSIWYG editor, but runs superfast, allows dynamic token-by-token content revealing, and doesn't slow down even when the document being revealed is extremely large.
3. A context-aware Q&A system that understands what piece of content to send to the LLM so that the answer is based on the document being read and the piece of content that the user is asking about.
4. A subsystem that converts to Markdown from LaTeX, ePUB, PDF, DOCX, and HTML.
5. A cross-document reference subsystem that allows typesetting books with automatically generated numerical references for figures, tables, equations, chapters, sections, and algorithms.
6. Support for several reading modes (normal, dark, and sepia).
7. Support for several reading themes: Pixyll, Github, and academic.
8. Multi-device support: desktop, mobile portrait, and landscape.
7. Voice-based input.
...
And I just started to enumerate the features.
In five months, I developed three versions of the software, starting two times from scratch because by working on it I encountered challenges that previous architecture wasn't designed to handle.
All of it: frontend, backend, database, authentication, scaling, handling of payments, etc., was made by one person who had zero experience with all of the technologies used in the tech stack.
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@AlternativeTo Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs. broccolito.github.io/bioscratch-lan…
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@John_Papa @code Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs. broccolito.github.io/bioscratch-lan…
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My wish list:
1. WYSIWYG editor (aka type markdown but see the output in the same window, not side by side, not a preview). Like paper and typora.
2. grammar check (like @grammarly)
3. spell check
Ideally in VS @Code - which is where I type all of my markdown 😎
John Papa@John_Papa
Question - for those of you who write in markdown, what spelling and grammar checkers do you use? And yes - copy and paste to grammarly counts :)
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@dhh Having a good markdown editor on the human side matters a lot. Please feel free to try out Bioscratch, a free, open-source, WYSIWYG editor that renders Mermaid inline and exports to HTML and PDF. Pairs nicely with AI-generated docs. broccolito.github.io/bioscratch-lan…
English


I just put together a what-you-see-is-what-you-get markdown editor called Bioscratch. No subscriptions, just open it and write. supports images, mermaid diagrams, math, code blocks, and exports to HTML or PDF natively. Please let me know your thoughts!
broccolito.github.io/bioscratch-lan…

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小児科学の専門誌「Frontiers in Pediatrics」に川崎病(KD)に関する新しい研究が発表されました。ヒトとマウスのRNA-seqデータのメタ分析を行い、この深刻な病気の新しい治療法につながる可能性のある重要な遺伝子と経路を明らかにしました。frontiersin.org/journals/pedia…
日本語

New study in Frontiers in Pediatrics on Kawasaki Disease (KD)! We meta-analyzed RNA-seq data from humans and mice, uncovering key genes and pathways that could lead to new treatments for this serious illness.
frontiersin.org/journals/pedia…
#KawasakiDisease #川崎病 #Pediatrics #RNAseq
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Wanjun Gu retweetledi

Wanjun Gu retweetledi

A new fascinating paper in Science Advances (science.org/doi/10.1126/sc…) on the association of a missense variant in EPAS1 that helped Andean highlanders in South America to adapt to high altitude, similar to how noncoding regulatory variants in EPAS1 helped Tibetan highlanders in East Asia to adapt to high-altitude life (pnas.org/doi/full/10.10…).
Unlike the Tibetan EPAS1 variants, which are ancient and possibly born in Denisovans and introgressed into East Asians via admixture 48,000 years ago (nature.com/articles/natur…), the Andean EPAS1 variant is relatively young born only ~10,000 years ago.
This is a beautiful example of convergent evolution where independent variants in the same gene drive human adaptation in different populations. Probably, the only known previous example of convergent evolution in humans was for lactase persistence where independent variants in LCT helped humans in Europe and East Africa to produce lactase as adults to digest milk (nature.com/articles/s4157…).
Lawrence, Gu, et al. Sci Adv
science.org/doi/10.1126/sc…
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Kudos to my teammates! A striking example of convergent evolution helps Andean and Tibetan populations breathe easy at more than 4000 meters.
Functional EPAS1/HIF2A missense variant is associated with hematocrit in Andean highlanders | Science Advances science.org/doi/10.1126/sc…
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Genomic Selection Signals in Andean Highlanders Reveal Adaptive Placental Metabolic Phenotypes That Are Disrupted in Preeclampsia | Hypertension ahajournals.org/doi/abs/10.116…
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