Various notes collected over the years. Please, contribute and get in touch!
- R notes
- Python notes
- Programming notes
- Data notes
- Bioinformatics notes
- Statistics notes
- Machine learning notes
- Hi-C tools
- Hi-C data
- scHi-C notes
- RNA-seq notes
- scRNA-seq notes
- ChIP-seq notes
- Methylation notes
- SNP notes
- Cancer notes
- Immuno notes
- Job notes
- Conference notes
- Grants notes
- MDmisc notes (this repository)
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GitHub Classroom tutorials for teachers and students
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RStudio Cloud - shared projects, assignments, private spaces. Guide
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Wilson, Greg. “Ten Quick Tips for Creating an Effective Lesson.” PLoS Computational Biology 15, no. 4 (April 2019) - Guide for effective teaching, learning principles, tips for creating lessons. Define your audience, spread and mix topics, formulate problems, make summaries, appeal to visual and linguistic learning channels, identify and correct learner's mistakes, motivate and avoid demotivation, be inclusive.
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1on1-questions Mega list of 1 on 1 meeting questions compiled from a variety to sources
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Rules for good lab environment: promote the well-being of all, allow schedule flexibility, show gratitude, treat all like teammates, foster collaborative environment, adjust to unique needs of everyone, respect official off-work days, acknowledge achievements, accept failure and celebrate success, promote the professional development. Twitter thread
- Maestre, Fernando T. “Ten Simple Rules towards Healthier Research Labs.” PLOS Computational Biology 15, no. 4 (April 11, 2019)
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Code of Conduct - Alex's Lemonade Stand example
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Applicant_note.md - Advice to PhD student/post-doc applicants. Source, Code to extract text
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The PI spectrum, by Jean Fan
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10 ingredients for a successful supervisor/PhD student relationship
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Lists of format-free journals, journals conforming to Your Paper Your Way (YPYW) initiative, the bioRxiv to journals or peer review services (B2J) initiative
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awesome-expectations - Examples of academic labs with explicitly stated expectations of themselves and their mentees in the form of written lab manuals, by Olga Botvinnik
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Advice to graduate students tweet with 11 pieces of advice from Tanentzapf Lab
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Advice to collaborating PIs by Ted Laderas
- Writing your first academic paper
- Reading academic papers
- The Leek group guide to genomics papers
- Writing reviews of academic papers
- Advanced Data Science knowledge and skills
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Which human reference genome to use? - differences between genome assemblies
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Twitter-based Poster Session - instructions for organizing virtual poster session, and the PPT template for making a 4-panel poster that looks good on Twitter. Created by @PhotonicsMeetup
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icd Fast ICD-10 and ICD-9 comorbidities, decoding and validation in R