Register training material
40 materials found

Content provider: CSC - IT Center for Science  or Khan Academy Statistics 


Introduction to using containers - OpenShift, Kubernetes and Docker oriented view

This material is CSC's Rahti basic cloud course which consists of lectures and hands-on exercises on creating and managing virtual resources in OpenShift OKD (Kubernetes). The original material was produced by Shubham Kapoor and Juhani Kataja, and updated by Tewodros Deneke and Alvaro Gonzalez

Keywords: Containers, Kubernetes, Cloud computing

Introduction to research data management, data management planning and services provided by CSC – IT Center for Science

This training video series includes four short videos on research data management. The titles of the videos are the following:

  1. Introduction to data management for life science researchers
  2. Introduction to data management planning
  3. Introduction to sections of a generic ​data management...

Keywords: DMP, RDM, plan, research data management, data management, data management plan, ELIXIR-CONVERGE

Resource type: Series of videos, Video, youtube video

Detecting differentially expressed genes with RNA-seq 11.9.2019

This workshop introduces the participants to RNA-seq data analysis methods, tools and file formats. It covers the whole workflow from quality control and alignment to quantification and differential gene expression analysis. While this course focuses on differential gene expression analysis...

Scientific topics: RNA-Seq

Single cell RNA-seq data analysis using Chipster

This course introduces single cell RNA-seq data analysis methods, tools and file formats. It covers the processing of transcript counts from quality control and filtering to dimensional reduction, clustering, and differential expression analysis. You will also learn how to do integrated analysis...

Keywords: scRNA-seq

Resource type: Slides, Training materials

Introduction to using cloud and containers for training - OpenStack and Docker oriented view

This material is based on CSC's Pouta cloud course which consists of lectures and hands-on exercises on creating and managing virtual resources in OpenStack (VM, volumes, networks, security Groups, VM snapshots, etc). It also covers topics like orchestration with Heat and accessing Pouta Object...

Keywords: Cloud computing, Containers

Resource type: Slides, course materials

Single cell RNA-seq data analysis with R

This hands-on course introduces the participants to single cell RNA-seq data analysis concepts and popular R packages. It covers the preprocessing steps from raw sequence reads to expression matrix as well as clustering, cell type identification, differential expression analysis and pseudotime...

Scientific topics: RNA-Seq

Keywords: RNA-Seq, Single Cell technologies, scRNA-seq

Resource type: course materials

Single cell RNA-seq data analysis with Chipster

This course introduces single cell RNA-seq data analysis methods, tools and file formats. It covers the preprocessing steps of DropSeq data from raw reads to a digital gene expression matrix (DGE), and how to find sub-populations of cells using clustering with the...

Scientific topics: RNA-Seq

Keywords: RNA-Seq, Single Cell technologies, scRNA-seq

Resource type: course materials, Video

Community analysis of amplicon sequencing data (16S rRNA)

This course introduces community analysis of amplicon sequencing data (16S rRNA). It covers preprocessing, taxonomic classification, and statistical analysis for marker gene studies. The user-friendly Chipster software is used in the exercises, so no Unix or R experience is required and the...

Resource type: course materials, Video

Virus detection using small RNA-seq

This course introduces the VirusDetect pipeline covering all the analysis steps and file formats. VirusDetect allows you to detect known viruses and identify news ones by sequencing small RNAs (siRNA) in host samples. siRNA sequences are assembled to contigs and compared to known virus sequences....

Scientific topics: RNA-Seq

Resource type: course materials, Video

RNA-seq data analysis

This course introduces RNA-seq data analysis methods, tools and file formats. It covers all the steps from quality control and alignment to quantification and differential expression analysis, and also experimental design is discussed. The user-friendly Chipster software is used in the exercises,...

Scientific topics: RNA-Seq

Resource type: course materials, Video

Metagenomics data analysis

Metagenomics investigates the composition and function of microbial communities in different environments based on direct isolation of genetic material. It has been accelerated by the advances in high-throughput sequencing technologies, and the increasing data sizes require efficient analysis...

Scientific topics: Metagenomics

Resource type: Video, course materials

Basic set operations

Whether you are learning computer science, logic, or probability (or a bunch of other things), it can be very, very useful to have this "set" of skills. From what a set is to how we can operate on them, this tutorial will have you familiar with the basics of sets!

Keywords: Independent and dependent events

Dependent probability

What's the probability of picking two "e" from the bag in scrabble (assuming that I don't replace the tiles). Well, the probability of picking an 'e' on your second try depends on what happened in the first (if you picked an 'e' the first time around, then there is one less 'e' in the bag). ...

Keywords: Independent and dependent events

Compound, independent events

What is the probability of making three free throws in a row (LeBron literally asks this in this tutorial).

In this tutorial, we'll explore compound events happening where the probability of one event is not dependent on the outcome of another (compound, independent, events).

Keywords: Independent and dependent events

Venn diagrams and adding probabilities

What is the probability of getting a diamond or an ace from a deck of cards? Well I could get a diamond that is not an ace, an ace that is not a diamond, or the ace of diamonds. This tutorial helps us think these types of situations through a bit better (especially with the help of our good...

Keywords: Independent and dependent events

Basic probability

Can I pick a red frog out of a bag that only contains marbles? Is it smart to buy a lottery ticket?

Even if we are unsure about whether something will happen, can we start to be mathematical about the "chances" of an event (essentially realizing that some things are more likely than others). ...

Keywords: Independent and dependent events

Making decisions with probability

Making decisions with probability from Khan Academy Statistics

Keywords: Probability and combinatorics

Probability using combinatorics

This tutorial will apply the permutation and combination tools you learned in the last tutorial to problems of probability. You'll finally learn that there may be better "investments" than poring all your money into the Powerball Lottery.

Keywords: Probability and combinatorics

Combinations

You are already familiar with calculating permutation ("How many ways could 7 different people sit in 4 different seats?"). But what if you didn't care about which seat they sat in? What if you just cared about which 4 people were in the car? Or put another way, you want to know how many...

Keywords: Probability and combinatorics

Permutations

You want to display your Chuck Norris dolls on your desk at school and there is only room for five of them. Unfortunately, you own 50. How many ways can you pick the dolls and arrange them on your desk?

Keywords: Probability and combinatorics

Categorical data

Categorical data from Khan Academy Statistics

Keywords: Statistical studies

Hypothesis testing

Hypothesis testing from Khan Academy Statistics

Keywords: Statistical studies

Types of statistical studies

Types of statistical studies from Khan Academy Statistics

Keywords: Statistical studies

Statistical questions

Statistical questions from Khan Academy Statistics

Keywords: Statistical studies

Sal's old statistics videos

This tutorial covers central tendency and dispersion. It is redundant with the other tutorials on this topic, but it has the benefit of messy handwriting and a cheap microphone. This is Sal circa 2007 so take it all with a grain of salt (or just skip it altogether).

Keywords: Descriptive statistics

Box-and-whisker plots

Whether you're looking at scientific data or stock price charts, box-and-whisker plots can show up in your life. This tutorial covers what they are, how to read them and how to construct them. We'd consider this tutorial very optional, but it is a good application of dealing with medians and...

Keywords: Descriptive statistics

Measures of central tendency

This is the foundational tutorial for the rest of statistics. We start thinking about how you can represent a set of numbers with one number that somehow represents the "center". We then talk about the differences between populations, samples, parameters and statistics.

Keywords: Descriptive statistics

Poisson process

Poisson process from Khan Academy Statistics

Keywords: Random variables and probability distributions

Binomial distribution

Binomial distribution from Khan Academy Statistics

Keywords: Random variables and probability distributions

Expected value

Now that we know what a random variable is, we can think about expected value. As we'll see, it can be viewed as a probability-weighted average of possible outcomes!

Keywords: Random variables and probability distributions