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Bioinfo Byte
India
Приєднався 16 гру 2022
Hello everyone,
I wanted to let you know that my UA-cam channel will cover different domains, namely coding, git, ngs data analysis, command line interface, data visualization, and command line usage. You may wonder why I chose these topics. Well, I noticed that people from a biology background often lack exposure to these fields. As a result, they face difficulties when looking for jobs because they lack experience in these areas.
Secondly I will cover in my videos is genomic background and how to handle NGS data to solve biological problems and draw conclusions.
Last but not least, I will also discuss the applications of these skills and how they can be used in various fields.
Thank you for your attention, and I look forward to sharing my knowledge with you.
I wanted to let you know that my UA-cam channel will cover different domains, namely coding, git, ngs data analysis, command line interface, data visualization, and command line usage. You may wonder why I chose these topics. Well, I noticed that people from a biology background often lack exposure to these fields. As a result, they face difficulties when looking for jobs because they lack experience in these areas.
Secondly I will cover in my videos is genomic background and how to handle NGS data to solve biological problems and draw conclusions.
Last but not least, I will also discuss the applications of these skills and how they can be used in various fields.
Thank you for your attention, and I look forward to sharing my knowledge with you.
Introduction and workflow of Single-cell RNA-seq | PART1 | Bioinformatics Course
Welcome to my channel! In this video, I'll guide you through the basics of single-cell RNA-seq analysis and the workflow. Learn how single-cell analysis is transforming our understanding of biology by allowing researchers to explore cellular heterogeneity.
I will be happy to have your comments and queries in the comments section!
Some useful resources to start reading the single-cell RNA-Seq data analysis:
1. www.ncbi.nlm.nih.gov/pmc/articles/PMC6582955/
2. hbctraining.github.io/scRNA-seq_online/lessons/01_intro_to_scRNA-seq.html
3. www.sc-best-practices.org/introduction/raw_data_processing.html
4. bioconductor.org/books/3.14/OSCA.advanced/quality-control-redux.html
#bioinfobyte #bioinformatics #single-cell #rnaseq #genomics #beginners #omics #research #scientist
I will be happy to have your comments and queries in the comments section!
Some useful resources to start reading the single-cell RNA-Seq data analysis:
1. www.ncbi.nlm.nih.gov/pmc/articles/PMC6582955/
2. hbctraining.github.io/scRNA-seq_online/lessons/01_intro_to_scRNA-seq.html
3. www.sc-best-practices.org/introduction/raw_data_processing.html
4. bioconductor.org/books/3.14/OSCA.advanced/quality-control-redux.html
#bioinfobyte #bioinformatics #single-cell #rnaseq #genomics #beginners #omics #research #scientist
Переглядів: 572
Відео
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Переглядів 1593 місяці тому
Are you looking for the Git workflow to clone the GitHub repository and use it? Follow this step-by-step guide to learn how: 1. Log in to GitHub: Go to the GitHub website (github.com) and log in to your GitHub account. 2. Clone the repository 3. Create a Branch: Branches are used to develop features 4. Make Changes: Edit, add, or delete files in your working directory 5. Stage Changes: Stage th...
Basic Linux Interview Questions for Bioinformatician | Linux QnA | PART 1 | Bioinformatics course
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Complete Git and GitHub for Computational Biology | PART 1 | Bioinformatics Course
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Linux terminal: .bashrc and .bash_profile | Creating Alias commands
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Skills needed to switch to bioinformatics field | Webinar 1 | Bioinformatics course
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Handling Human gene annotation file (GTF) with advanced Linux command | Bioinformatics Course
Переглядів 4195 місяців тому
In this lecture, we dive deep into advanced Linux commands like sed, grep, awk, cut, sort, and tr, unlocking their full potential for data manipulation and processing. But that's not all! We also specialize in handling Human gene annotation files (GTF) using these advanced Linux commands. 🧬💻 Our tutorials guide you through the intricacies of parsing GTF files, identifying protein-coding genes, ...
Mastering Linux Command Line for Bioinformatics | Module 2 | Bioinformatics Course
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Welcome to my bioinformatics tutorial! In this video, I'll show you essential Linux commands for processing, analyzing, and visualizing biological datasets. From basic to advanced techniques, you'll gain the expertise needed to tackle complex genomic, transcriptomic, and proteomic data with ease. Don't forget to like, share, and subscribe for more tutorials on bioinformatics, genomics, and data...
Mastering Linux Command Line for Bioinformatics | Module 1 | Bioinformatics Course
Переглядів 7185 місяців тому
🌟 Mastering Linux Command Line for Bioinformatics 🌟 Welcome to my channel! In this video, I'll guide you through the essential Linux commands you need to know to handle biological data like a pro. Whether you're a beginner or looking to level up your skills, this tutorial covers everything from basic commands to advanced techniques tailored specifically for bioinformatics analysis. 🔍 Explore th...
Shell scripting | Chapter 3 | Bioinformatics Course
Переглядів 1166 місяців тому
Welcome to our third tutorial on shell scripting! In this video, we're diving into the essentials of variable manipulation and user input handling in shell scripts. Are you ready to take your shell scripting skills to the next level? Join us as we explore: 🔹 Defining variables 🔹 Variable modifications 🔹 Calculating string length 🔹 Reading user input Whether you're a beginner or seeking to enhan...
Shell scripting | Chapter 2 | Bioinformatics Course
Переглядів 1926 місяців тому
Welcome to Chapter 2 of our Bioinformatics Course: "Shell Scripting." In this installment, we dive deeper into the world of shell scripting by exploring essential file manipulation techniques. Join us as we cover crucial topics including: 📁 Manipulating files: 🔄 Redirecting and appending: 📋 Listing all files: 🕵️♂️ Hidden files ✂️ Renaming, copying, and deleting files and folders Don't forget t...
Introduction to shell scripting | Chapter 1 | Bioinformatics Course
Переглядів 7476 місяців тому
Welcome to the first chapter of our Bioinformatics Course: "Introduction to Shell Scripting." In this video, we delve into the fundamentals of shell scripting, a crucial skill for aspiring data scientists and bioinformatics analysts. Are you eager to embark on a journey into the world of bioinformatics, where data meets biology? Join us as we lay the groundwork for understanding the command lin...
Normalization of single-cell RNA-seq data | NGS Data Analysis
Переглядів 124Рік тому
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Normalization method for scRNA seq and spatial transcriptomics data | Part 1
Переглядів 184Рік тому
Normalization for sc-RNA seq data is explained briefly. In this video, I will go over when you encounter the normalization step, why it is needed, and what are factors considered for normalization. I will cover the log transform normalization used in the scRNA seq pipeline in Seurat. #normalization #seurat #bioinformatics #scRNA #dataanalysis
Genomic file formats: GFF / GTF file format
Переглядів 556Рік тому
Genomic file formats: GFF / GTF file format
Genomic file formats: BAM / SAM file format
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NGS Data Analysis: Lesson 1 | Genomic File Formats: FASTA, FASTQ, and BCL
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Where to download Linux
If you are using windows os then you can download the mobaxterm to launch the terminal to practice the command line.
Very useful.
Very informative video! It is helping prepare for interviews. Looking forward for more contents from you.
Simply saying "this is ", "that is " Not explaining with examples
if you could send me the timing of the clip so that i can understand which example you are looking for so in future videos i will make sure to cover in details
and the second point, I have added a couple of resources in the description to read. so please go and read those resources first.
I want learn data visualisation and genomics from you.
Sure, I will upload some videos on data visualization and genomics
Nice bro
Thanks
Please share your GitHub URL also . nice video
Thank you for amazing session!
I am Happy that it is helpful to you.
Thank you
You're welcome
This was very insightful! can you suggest where I can practice running shell scripting on biological data? thank you
You can start practicing shell scripting by writing a shell script on mobaxterm terminal (if you are a windows user) or simply on terminal (if linux user) to handle biological data like bam file, vcf file, fastq file etc
Thankyou sir ❤ Very beneficial for beginners like me😊
Thank you sunidhi. I am happy that the video is helpful to you.
Nice,I also graduated from IITB
Great to hear that. Please feel free to connect with me on LinkedIn.
Its really helpful please keep it up!
I am happy that my video is helpful to you. Thank you so much 😊
How to download genome file( .fna) from ncbi? (File which you are working on 39:21 ) and also how to download annotation file( .gtf file) from ncbi? Please provide the steps.
I have covered it in this video: Basic Linux Interview Questions for Bioinformatician | Linux QnA | PART 1 | Bioinformatics course (ua-cam.com/video/s2NsP7RZsoM/v-deo.htmlsi=lyF_QvsR_btV9x61) Time: 12:09 All the steps are explained to download annotation and FASTA file from NCBI database
@@bioinfobyte Okay. Thank you so much!
this video saved my day, thank you soo so much sir. i was struggling to solve one problem and finally came accross your this video. hope you get a lot of success
Glad it helped
@@bioinfobyte Glad you posted it:)
sir im having problem after using vim command after pressing ESC it is not showing me colon sign can you please help me out
press Esc then type : and wq to write and save. colon thing you have to type after exiting the insert mode
Thank you for uploading it on UA-cam, free for all. People charge hefty amount of money still don't provide this level of clarity with actions. Please keep posting 🙏
Thanks for all your support. I am happy that my video is helpful for you.
Congratulations on your very quick 500 subscribers
Thank you so much 😀
Thank you so much sir! This session was so insightful. Looking forward to attend many more such webinars in future.
I am glad that the webinar is helpful for you. I will conduct more webinars to teach bioinformatics skills.
👌
😊😍
Extremely good content, very helpful
Glad to hear it! 😍😊
Thank you, Please Keep uploading, Its very helpful
I am happy that it is helpful.
Option b
Option a)30.0 will be the answer b=60 a=30 Hierarchy of multiplication and division operator is same.so we have to move from left to right a*b=30*60=1800 1800/b=1800/60=30 But here division operator is used not the floor division operator and in python the division operator returns the value in decimal So the answer will be 30.0
Really very useful please keep uploading more and thanks a lot
Thank you, I will
Could you provide the input gtf files. It'll be helpful to practice
drive.google.com/file/d/1Q_Gyoer6u1L4LibmYm2Ark98DSFXn2GK/view?usp=sharing please find the input file
@@bioinfobyte Thank you
wow, thanks for simplifying so clearly. thank god I came across this channel. keep creating such meaningful videos and keep helping others :)))
So nice of you
@@bioinfobyte one of my friends told me you are offering bio info courses, how to join your course?
@@bioinfobyte :)
this video helped for my exam bro thank you bro continue bro like
How to make GFF file recently I have to checked my different gene location in different locations of Chs so could you please tell us
Amazing explantion
Thanks for all your support. 😍
I received the transcriptomic data from deposited data for example TPM 3312.43 and FPKM 199.29 for a target gene. I want to display the gene expression. Do I need to further convert the above mentioned value more? Or I can use the value as TPM or FPKM. Thanks in advance for your kind assistance!
You can use the TPM and FPKM normalized values to display the gene expression. The main aim to select the normalization step is based on what exactly you are aiming to find out. For example- TPM is recommended for Gene count comparisons within a sample or between samples of the same sample group and FPKM is recommended for Gene count comparisons between genes within a sample; NOT for between-sample comparisons. I hope this will help you.
@@bioinfobyte Thanks a lot for your kind reply and recommendation! Hopefully, it will be very helpful for my analysis. I wish you good luck in your future endeavors.
Excellent
Good
Thank you so much sir it helped me in solving my internship task.....🙏🙏🙏🙏
Great 👍
Much needed lecture🙏, thank you so much sir.
So nice of you
Are you doing phd bro ?
No. I am working as a scientist in strand life sciences.
Nice
Thanks
Brilliant advice ❤
Very nice sir.. you made it so easy..
So nice of you
Honestly this is very helpful
Thanks for this tutorial
You're welcome 😊
How to solve this?
Try once and let me know your answer. Then I will explain the code and the result.
@@ashishchoudhary9503 Oh I tried, now its so easy
Great
Nice video sir ji.... Keep making these videos
Thank you, I will
This is cool 😂
Thanks for these everyday question Sir ❤ it really helps me to revise 😍
Finally found a good educational creator to follow ❤️
Wow thanks for these awesome question... It really helps me to revise every single day
😂😂😂😂
Real pain 🤣🤣
Mst bhai... Mazaaa aa gya😂😂
🤣🤣
Haha ... This is so funny😂
Hena...🤣