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Skillsets from the /r/bioinformatics Slack Group
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| Name | Slack Call Sign | Location | Interests | Skills (General) | Preferred Language | Programming Languages | Education Background | Github Username | Preferred group within collab | |
|---|---|---|---|---|---|---|---|---|---|---|
| Mark van der Sman | mvdsman | Leiden, The Netherlands | Visualisation, genomics, pattern recognition/ML, statistical analysis, phylogenetics/evolution (and many more) | Visualisation, genomics, web development, some transcriptomics and some Machine Learning/Natural Computing. Biologist going for MSc BI | R | Most experienced in R/RShiny, decent in Python and HTML/CSS/Markdown, basics in C++, PHP, SQL. Flaming hatred towards Matlab | B.Sc. Biology + minor Data Science, going for M.Sc. Bioinformatics | MvdSman | Visualisation | |
| Anthony Fejes | apfejes | Bay Area, California | Visualization, transcriptomics, epigenomics, genomics, | Biologist, biochemist, programmer, entrepreneur | Python | Python, C, SQL/No-SQL, Java, etc. (Anything except R, Javascript) | B.Sc. Biochemitry B.I.S. M.Sc. Microbiology and Immunology PhD. Bioinformatics | apfejes | ||
| Dimitrios - Georgios Kontopoulos | dgkontopoulos | London, UK | Mainly - though not exclusively - phylogenetics, evolution of genes/genomes, evolutionary ecology. | Phylogenetic tree reconstruction and time-calibration, phylogenetic comparative methods (e.g., understanding how genome size evolves across the phylogeny), statistics (e.g., NLLS, Bayesian GLMs etc.), homology modelling, some mathematical modelling, some machine learning. | R | Very good at Perl and R, good at Python, basic skill in C. | BSc Molecular Biology and Genetics, MRes Biodiversity Informatics and Genomics, currently a PhD student in evolutionary thermal biology of ectotherms | dgkontopoulos | Visualization | |
| Shaurita Hutchins | Shaurita | Jackson, Mississippi | Psychiatry, Evolutionary Genetics, Dataviz, Web Dev, Spotify apps, Public Health/Epidemiology | Genomics Pipeline Development, Python Package Development, Website Development, R Data Visualization, Markdown Syntax, Scientific Writing, Linux, Pandas | Python | Experienced in Python, Bash, HTML/CSS. Intermediate in R (mostly rShiny). Beginner in Javascript & ReactJS | B.Sc. Biology Premed, M.Sc. Biology | sdhutchins | Visualization | |
| Clint Valentine | clintval | Seattle, WA | Genomics, Mutagenesis, NGS Error-correction, Carcinogenesis | Linux, Python Packaging, Python Data Vis., Pipeline Development, Database Design | Python | Python, Bash, Perl, Javascript, R, SQL | clintval | All 3? Less experienced in RNA-seq analysis but very interested. | ||
| Sid | bioinfo(heart) | St Louis, MO | Genomics, transcriptomics, alternative splicing, 10x genomics(wgs) | Linux, R (visualization), python for data processing , biologist, self taught python programmer | Python | python , R (both intermediate) | MSc Biotechnology, MSc Bioinformatics | sridhar0605 | splicing, and visualization | |
| W.R. Jackson | wrJackson | Asheville, NC | Visualization, NLP, Genomics, ML, Spatial Statistics | Linux, Data Processing, Automation, Assembly | Python | Python, Java, R, C, Bash. Currently learning Julia. | BSc Computer Science. Minor in Biology as of next semester | |||
| Michael Hatch | LichJesus | San Diego, CA | Machine Learning, cancer, computational methods for diagnosis | ML, data mining, ETL/pipelines, Linux, circRNA, rnaSeq | Python | Python, Bash, Matlab, R, HTML/CSS/JS (ish) | BSc Cognitive Science specialization in Machine Learning 2016 | ffmjhatch | RNA | |
| Yang Li | Yang | Chicago, IL | Gene regulation, genomics, genetics, complex disease | Algorithms, genetics, statistical genetics | Python | Python, Bash, R | B.Sc. Math and CS, PhD Genomics | |||
| Marcelo de Almeida | Marcelo de Almeida | Porto Alegre, Brazil | Machine learning, ontologies, computer vision, genomics | Machine learning, software engineering, algorithms, data processing | Python | Python, C, Java | B.Sc. Biomedical Informatics, expected 2018/12 | m7rcelo | Backend | |
| Dan Norris | protochron | Seattle, WA | Machine learning, genomics | Linux, cloud computing, databases, automation, data pipelines | Python | Go, Elixir, Ruby, Python, bash | BSc Computer Science, MSc Computer Science (evolutionary computation) | protochron | Backend | |
| Paula Restrepo | paula-rstrpo | New York, NY | Psychiatry, Neurodevelopmental disorders, genomics, presicion medicine, cancer, transcriptomics, diagnostics | Linux, python (self-taught), biology, R, NGS pipelines (RNA-seq, WES, WGS), genetics, epigenetics | Python | Python, bash, R | BS Biology, 2017 | paularstrpo | Visualization | |
| Jared Lumpe | jlumpe | San Francisco, CA | Systems bio, cancer, visualization, ML, statistical models, single-cell technologies. | Significant experience with Python and libs for scientific and high-performance computing, good w/ most Python visualization/plotting libs, ML (intermediate?), web dev creating data analysis apps, some experience building pipelines. | Python | Python (advanced), Bash, R (if I have to), C, Javascript/HTML/CSS, SQL | BS molecular biology, first year PhD student in bioinformatics. | jlumpe | ||
| Edgar E. G. Kozlova | eegonzalezk | Florianópolis, Brazil | Structural Biology, Proteomics, Genomics, RNASeq, Network analysis, data mining | Immunoinformatics, statistics, biology, R, python. | R, Python | R, python, bash, regex, Perl | Biologist. Ph.D Bioinformatics, 2 year post doc. | berserked | ||
| Matt Moss | moss | Long Island, NY | RNA/ChIP seq, neuroinformatics, cancer, ML | Statistics, python, biology, linux, NGS Pipelines | Python, Bash | Python, R, bash, Matlab, a little C++ | BS Applied Math, BS Biology - Minor Philosophy. Hoping to do masters/PhD in stats soon | mmoss609 | ||
| Caleb Lareau | caleblareau | Boston, MA | Epigenomics; genomics | Cancer biology; hematopoesis; package development; statistics; scRNA-seq, scATAC-seq | R | R, Python, C++, Bash | BS in Biochemistry and Mathematics; PhD in Biostatistics (in process) | caleblareau | ||
| Rob Gilmore | grabear | Jackson, MS | Genetics, Visualization, Psychiatry, Neurogenetics, Human Behavior, Raspberry Pi, IoT, Package Creation, Machine Learning, RNASeq | Python3, R, Linux, Linux Admin, Bash, Pipeline Development, R-Shiny, Markdown, Cell Biology, Microbiology, Genetics, Technical Writing, | Python 3, R | R, Python2, Python3, Bash | BS in Biomedical Engineering, 2013 | grabear | ||
| Marijo Simunovic | anticodeon | Zagreb, Croatia | Genetics, Metagenomics, Nanopore sequencing, Gene coexpression networks | Embedded software development, mainly on Linux platforms with C++ programming | C++, Python3 | C++, Python3, C, some experience with Bash, Matlab and Lua for scripting and assembler for uC firmware | MSc Electronical and Computer Engineering, 2011 | anticodeon | ||
| Stephen Salim | Stephen | Jakarta, Indonesia | Genetics, Computational biology, Nutrigenomics, Nutrigenetics | Genetics, Statistics, Computational biology, self-taught programming | Python 3 | Python 3 (intermediate), R (intermediate, mainly for visualization), HTML5 (basic), CSS (basic) | BS in Biotechnology, 2013 | stephensalt | ||
| Hirak Sarkar | hirak | Stony Brook, NY | Machine Learning, Algorithms, RNA-seq | Python, SQL, C++ | C++, Python3 | Well versed in C++, Python, C. | B.Tech, M.Tech Computer Science, 4th year CS Ph.D student | hiraksarkar | ||
| Mark Gorelik | randomguy12 | London, UK/Cupertino, CA | Genetics, Comp Bio, Proteomics, taking long walks on the beach, Machine Learning, proteomics, drug design | Python, Automation (mostly in Python), Linux, Biopython, sklearn | Python | Python, Java, R (Weak), Ruby | BS in Cell/Molec Bio and CS, Minor in Chem | vzg100 | backend/vis | |
| Jordan Wilheim | jordwil | Bay Area, CA USA | Genetics, Proteomics, Assay Development, Machine Learning, AI, Drug Design, Prediction and Inference. | Developing Bioinf pipelines, statisitcal learning methods, data science, comp. bio assay dev. | Python | Python, R, bash | MSc Bioinformatics 2017 | jordwil | ||
| Liviu Anita | liviuba | Bucharest, Romania | Applying software development principles to bioinformatics | Devops, API design, Software/solution architecture, Distributed systems, Highly available services | Python | Python, Node, PHP, (rusty) Rust, (rusty) Java | BS in Computer Science | liviuba | ||
| Anna Lu | anna | Washington, D.C. | -omics, machine learning in diagnostic decision making, data standardization | Python, Unix, AWS, Docker, Elasticsearch, SQL/NOSQL, NLP, information extraction | Python | Python, bash, Java, MATLAB, C | BS Biomedical Engineering | ahl54 | Backend/Databases | |
| Ram Srinivasan | RamRS | New York, NY | Genetics, large scale computing (HPC/Cloud) | Unix, R, SQL, Programming | Shell, R | Shell (bash/zsh), R, Python (mild proficiency), Java (basic knowledge) | MS Bioinformatics, 2013 | RamRS | Backend/Databases | |
| Anurag Sethi | San Francisco, CA | Genomics, Structural bioinformatics, Precision Medicine | Functional Genomics, Enhancer Prediction, Annotation | Python, C | Python, Unix, C, C++ | PhD, 2008 | sethi7ik | Databases/RNA-seq | ||
| Gaston Rijo | Synth Rat | Montevideo, Uruguay | Functional Genomics, Genetics, Genomics, Metabolism, Gene regulation | Biology, Biochemistry, Annotation, Bacterial genome assembly(illumina) | Python | Python, R | BS in Biochemistry undergrad, expected 2018 | gaxyz | RNA-seq | |
| Vlad Sterzhanov | spolakh | Bay Area, CA | Machine learning, Genomics, Cancer, Gerontology | Software generalist: Python, Automation, Data Processing, intermediate ML, basic UI | Python, C++ | Python, C++, Typescript, SQL, Clojure (rusty), Java (basic, rusty) | BS Computer Science | spolakh | Backend/RNA | |
| Clayton Visger | clayton | sacramento, CA | Polyploidy, evolutionary biology, gene expression, translation | Genomics, transcriptomics, ecological modeling | Shell, R, Python | Shell, R, Python | PhD | HoityPloidy | RNA-seq/DataViz | |
| Nazeefa Fatima | Nazeefa | Skåne, Sweden | Evolutionary/Phylo- genomics, transpoable elements, protistology, nanopore sequencing, programming, and science outreach | Biology, Phylogenetics, programming, Markdown, writing, web content management, and bioinformatics outreach | Bash, R, Python 3, English? | Bash, Awk, R, Python 3, HTML, Javascript. | First year MSc bioinformatics student | nazeeefa | All with RNA-seq and visualisation as first two preferences |
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