Useful resources throughout your PhD


Useful resources throughout your PhD

June 09, 2023


Here is a list of resources that might be useful to you during your PhD.

BioinformaticsCareer planning,  Deep learningFunding opportunities , fu:statGithub, Job applicationLinear AlgebraLinuxMachine learningMatlabMAXMental healthPhD guide, Plagiarism detection toolPosterProfessional figures and drawings, Project planing and time management, Python,  RReadingScience communicationScientific writingStatistics

 

Feel free to suggest more ideas!

 

All employees and guests at the MPIGM have access to the MAX platform, the intranet of the Max Planck Society. To connect, select “MPI for Molecular Genetics” in the “Choose your institution” menu, and enter your personal number (you can find it on your salary sheet) and your password. If you are a guest, contact the HR office to get your personal number. 

You can find more information on MAX here

 

If you are struggling with problems that affect your mental health and well-being, don't stay without talking about it! You are not the only one and there is no shame in feeling down and asking for help. There are several solutions available to you:

Zoë J. Ayres, 2022, Managing your Mental Health during your PhD – A Survival Guide

 

Free tools from IThinkWell

 

You can take advantage of tools, coaching & training offers available to you at the Planck Academy (MAX platform). 

 

You can access the inhouse Github here.

 

https://www.datacamp.com/courses/free-introduction-to-r

Nordmann et al., 2022, Data Visualization Using R for Researchers Who Do Not Use R (Paper and Bookdown for working through tutorial)

Måns Thulin, 2021, Modern Statistics with R, From wrangling and exploring data to inference and predictive modelling

Altuna Akalin, 2020, Computational Genomics with R

Collauti, 2022, R Crash Course for Biologists

 

The Python Workshop - Second Edition, 2022, by Corey Wade, Mario Corchero Jiménez, Andrew Bird, Dr. Lau Cher Han, Graham Lee

Books and courses about Python on O’REILLY


 

The Linux Command Line, by William Shotts

 

The Max Planck Society has a licence with unlimited access to all online trainings and tools. You can find more information here: https://de.mathworks.com/academia/tah-portal/max-planck-gesellschaft-zur-foerderung-der-wissenschaften-ev-31194937.html. Click on “Sign in to get started” to create an account with your MPIMG email address. 

MIT OpenCourseWare

 

Bioinformatics Algorithms: An Active Learning Approach by Compeau and Pevzner (textbook, free chapters here + videos): 

MIT OpenCourseWare, Computational Biology: Genomes, Networks, Evolution, HealthMachine Learning in Genomics

Lectures and workshops at the Simons Institute for the Theory of Computing

HarvardX Biomedical Data Science Open Online Training: Data Analysis for the Life SciencesGenomics Data AnalysisUsing Python for Research

Applied Computational Genomics Course at the University of Utah

Introduction to Bioinformatics and Computational Biology by Shirley Liu

Data carpentry workshops on genomics

Computational Genomics: Applied Comparative Genomics by Michael Schatz

Introduction to Computational Biology by Mike Love (IMPRS-CBSC alumnus)

Self-taught education in  Bioinformatics by Open Source Society University

Rosalind: platform for learning bioinformatics and programming through problem-solving

 

The Planck Academy offers a webinar on Improved Reading. You can find more details here

Gosztyla, Nature, 2022, How to find, read and organize papers

 

Mensh & Kording, 2017, Ten simple rules for structuring papers.

https://www.coursera.org/learn/sciwrite

http://www.bushmanlab.org/assets/doc/ScientificWritingV39.pdf

https://cbc.arizona.edu/sites/cbc.arizona.edu/files/marc/Sci-Writing.pdf

Helmut Grubmüller, 2020, Scientific Writing: The Art of Programming Brains

Elisabeth Pain, 2023, How to write a research paper

Mireille Consalvey, 2023, A funding adviser’s guide to writing a great grant application

 

Users from the Max Planck Society have access to iThenticate, a plagiarism detection tool that applies text-matching algorithms to compare the full text of a given manuscript with a growing number of published scholarly works and web content. You can find more information here: https://ithenticate.mpdl.mpg.de

 

All MPG employees have access to Biorender. Please check carefully the licensing terms beforehand. 

 

How to create a better research poster in less time

Best tips on poster preparation, structure and content by Matthew Kraushar

 

Time to rethink the scientific CV, Nature 604, 203-205 (2022)

Tips for a successful CV for non-academic jobs

Tips for a successful cover letter for non-academic jobs

 

https://www.youtube.com/playlist?list=PLqPI2gxxYgMKN5AVcTajQ79BTV4BiFN_0

 

https://www.coursera.org/learn/machine-learning

Amidi & Amidi, 2018, Super VIP Cheatsheet: Machine Learning

MIT OpenCourseWare

Garrett Thomas, 2018, Mathematics for Machine Learning, University of California, Berkeley

Marc Peter Deisenroth, A. Aldo Faisal, Cheng Soon Ong, 2020, Mathematics for Machine Learning

 

fu:stat is the statistical consulting unit of the FU-Berlin, offering statistical consulting as well as statistical methods, software training and other resources. You can find more information here.

 

https://www.coursera.org/learn/stanford-statistics

 

MIT OpenCourseWare

 

https://issuu.com/zeitmagazine/docs/campus_ratgeber_heft_pdf

 

Find the appropriate format for your target audience here

 

DRS portal

Research funding portal of the Freie Universität Berlin

Federal Funding Advisory Service on Research and Innovation: They can help you identify a whole range of funding opportunities from various German government initiatives. They can also help you find local, national and EU research schemes, recommend partners, support international projects and much more.  You can contact them by phone or email.

Research in Germany: you can find there funding opportunities for different career levels. 

 

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