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Learner Reviews & Feedback for Command Line Tools for Genomic Data Science by Johns Hopkins University

4.0
stars
541 ratings

About the Course

Introduces to the commands that you need to manage and analyze directories, files, and large sets of genomic data. This is the fourth course in the Genomic Big Data Science Specialization from Johns Hopkins University....

Top reviews

RL

Nov 27, 2022

I use for decade UNIX command but this course opens my mind into new horizon on UNIX command , data science and I realize learn a lot from this learning time...

Big Thanks

CW

Aug 5, 2020

There were some typos and confusion about the need not to follow the example code for Exam 4.

However, I thought that the course was good and useful overall.

Thank You!

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76 - 100 of 154 Reviews for Command Line Tools for Genomic Data Science

By Ming L

Dec 5, 2017

nice design

By Alvaro E U G

Jun 29, 2016

Excellent!

By preeti p

Jul 15, 2020

Amazing

By Ronald F R M

Apr 24, 2020

thanks

By Nate R

Oct 30, 2016

Coming in as a veteran coder of 2 decades, I thought this would be "easy". And, had I completed it using my own C/Python code, it probably would have. However I made the decision to stick with ONLY the command line tools and actually ended up learning a lot more about basic unix tools that I rarely get to use.

Be prepared to knuckle down and REALLY learn a lot about the specific commands and what they provide as there are a ton of them. The instructor goes into a ton of detail on each one and the course is laid out in a nice flow starting with the basics and ending with a very challenging exam at the end that showcases an entire RNA-seq technique.

With a bit more polish, it would be 5 stars, but as it stands there is a bit rough around the edges.

I think this course should be #2 in the specialization as the underlying concepts of RNA-seq and how the tools fit together would have been invaluable while taking the current #2 course on Galaxy. I think that I can now go back and get 100% on the final project armed with the RNA-seq techniques that were not originally covered in my first run through the Galaxy content.

By Deepti R

Nov 6, 2017

Excellent quizzes and exams. Smooth flow of lectures. However, as a beginner I faced a lot of difficulty in installing the required tools. I could complete the course only because the tools were provided as a package with the VM box. I will be handling NGS data for my PhD project, for which I will have to install the latest versions of these tools. Manuals are cryptic. A lot of errors keep cropping up whenever I try to install anything. This course should have taught us that part too. I shall be thankful if you could provide a short course or a step by step write up for the same, else we will not be able to apply what such a good course taught us.

By Rafael S L O

Oct 27, 2023

Decent course, provides a fairly good explanation of the files and steps being used, but it lacks updates. Currently, tophat has been deprecated and replaced by HISAT2, so the course needs a major revamp. Other than that, there's valuable information on things that can be hard to find even online (and barely even talked about at university degrees) such as SAM/BAM detailed file overview. These things might be details, but its important to understand.

By Maximilian K

Jan 5, 2017

Thanks for the great course. IT was just right level of easiness/hardness. While the quizzes were basic, the homework quizzes were hard but not unsolvable. These actually motivated to further spend time on familiarizing with the tools, whch is essential for home usage.

Sometimes the videos had their length when we watched somebody else typing... that could have made better.

By mdeea o

Mar 17, 2016

This course covers used of command line tools such as the Tuxedo suite. Just what I was looking for. The subject was well paced and the material covered appropriate. I felt confident at the end of the course that I had almost mastered something valuable. The discussions were not very active and I felt rather isolated, so I'm taking one star off for engagement.

By Keri M

Feb 27, 2019

I learned a ton and feel like I understand the formats of all of the different really well. I will say that week 4 is out of date in that Tophat has been replaced with HISAT and I wasn't able to download the tools needed. It wasn't a waste of time to learn tophat but would have been nice to learn the most recent tools.

By Jitesh D

Mar 30, 2019

Course content is really good! Lot of informational resources. Course delivery was little monotonous though. Exam 4 really made it very difficult due to not so clear instructions, otherwise it was a good course. Learnt lot of command lines tools and mainly to effectively use Linux commands in analysis.

By oyebode j O

Dec 20, 2018

Very fine course. drills students well. would prefer if files used in examples were provided for students before the class. it makes life easier. would also prefer students are advised how to install tools on their laptops. Good course overall and I learnt much

By Kenan S

Nov 8, 2021

This is a great course to learn Linux commands for bioinformatics as well as normal Linux use. The only reason I didn't give this course a 5 start is because it is very difficult to follow along with the instructor since we aren't given any files.

By Benson N M

Dec 21, 2016

Awesome course. The skills taught will cut across not only in genomics but also, in other aspects. The discussion forum was amazing! The mentors and people who were doing the course at the period i did it were very helpful.

By Michael G

Jul 22, 2018

There could be more resources provided and the lecture at the beginning of module 4 should be placed at the beginning of the course. Because the overview of molecular biology serves as background for the entire course.

By Huma P

Mar 11, 2022

Course explanation is good but some topics are not updated like mplieup is now not included in samtools and they didnot update information. Instructor taught lectures very well.

By 李俊宏

Mar 3, 2019

This course is reasonably difficult. The assignments are quite fulfilling and well organized by virtual machine. I hope the slides could be more detailed because it too simple.

By Sara C

Oct 18, 2016

Th lecturer could be a little more engaging and the materials used during classes, if made available would help following it better, by replicating the examples being shown.

By Leonardo S

Apr 24, 2020

Some explanations are4 not completely clear. A good summary of what every tools does and of which rools should be used to tackle which situation would really beneficial

By Andrew J D

Aug 27, 2018

Very informative course. Only downside is that the example datasets/scripts are not provided (which I tend to find to be useful for learning informatics).

By Gonzalo C S

Feb 6, 2017

It was a useful course. A pity that the instructor makes so many mistakes when speaking, which makes sometimes a bit confusing to follow.

By 邵文

Jun 15, 2018

The speaker's accent and inaccurate subtitles sometimes make it difficult for me to understand.

By Erik K

Mar 3, 2019

Excellent Introduction to Command Line Tools used in High Throughput Sequencing Analysis.

By Vassil D

Jan 8, 2017

More in-depth explanation would be better. Reasonable projects, overall. Well structured.

By Aleksandr F

Mar 18, 2021

Course is good, Exam 4 requires extra instructions. DO NOT USE ANNOTATIONS WITH TOPHAT!