4 ай бұрын
Пікірлер
@CelinaLin-jk3rr 17 сағат бұрын
Hi! Thanks for the video. I am not sure if you are active, but I was wondering if you know how to split VCFs based on population. I am trying to subset the chromosome 17 VCF from the 1000 genome project, and calculate the allele frequency for each population. But every time I do that, it results in the same data for every population VCFs.
@lukab8362 11 күн бұрын
Which featureCounts version are you using? I am getting error for unknown parameter --countReadPairs
@gianmarcocastillohuaccho244 21 күн бұрын
Nice, thanks🎉
@Kittykelly55 22 күн бұрын
Best tutorial on this topic I have seen
@iamblackwal 22 күн бұрын
Nice work 👍
@gauravgarwal2840 22 күн бұрын
source activate venv worked for me... Thanks
@quickbiology5159 27 күн бұрын
Thanks a lot
@anmol76 28 күн бұрын
worked
@JoyDipBarua Ай бұрын
When searching for the same accession number in the ENA browser, it shows a FASTQ file, but in your tutorial, it indicates a FASTA file. Could you please guide me on how to obtain a FASTA file for AMR analysis? I would appreciate it if you could provide further clarification on this matter.
@mesfinworku6066 Ай бұрын
Thank you for sharing
@HangWang-o5z Ай бұрын
you saved my DAY!!!
@chiaps1963 Ай бұрын
Thanks for the video! Short and direct to the point!
@abc_ratio Ай бұрын
how can I remove ensembl version number in my data
@caglagucdemir5882 Ай бұрын
I'm trying to set the `word_size` to 600, but I keep encountering an error that says the maximum allowable `word_size` for BLASTN is 100. I'm using the same dataset as you, but it seems that this limit is enforced by BLAST itself. Could you advise me on what to do in this case? How can I work around this limitation?
@bioinformaticscoach Ай бұрын
Since BLAST indicates it has a limit. That means you cannot go beyond it because that is a feature of the tool. For a work around, I am yet to find one. So I suggest you stick to the limit. Is there any reason why you want to use 600?
@caglagucdemir5882 Ай бұрын
@@bioinformaticscoach No, actually. I'm new to Circos and currently working through tutorials to learn the software. When I lower the `word_size` to 100 (BLAST max limit), I encounter an issue with Circos, where it tells me that the maximum number of links is 25,000 and drawing that many links (51,650) may create an image that is too busy and uninterpretable.
@MedicalMicrobiologyGuide Ай бұрын
Thank you bro. The video is informative. Can we use the same codes for other bacteria?
@nitinshukla999 Ай бұрын
I was watching the tutorial can i get the example data and codes that you used.
@DB-kv3wu Ай бұрын
❤❤❤❤ Very informative and awesome!
@ZenVibes-007 Ай бұрын
Thanks I found it helpful
@AtakanUnlu Ай бұрын
Great video. I can't find the extract_splice_sites.py file. Could you help me, please?
@mutazmohammed9621 Ай бұрын
I'm facing the same problem, and if you figure it out, please help; thanks in advance
@meghaujinwal6516 Ай бұрын
Please give a tutorial on how to build a database in snpeff also. Please
@meghaujinwal6516 Ай бұрын
When I downloading the database. The output doesn't show 'agy99_gca_000013925'. What to do.
@harshulkapoor6672 Ай бұрын
Hello sir, can you please make a tutorial video on how to analyse microarray affymetrix data using Limma on R
@sreeram6416 Ай бұрын
lots of love and respect from INDIA sir
@prickyversatile7626 Ай бұрын
Dear Sir, I had downloaded codonw in linux according to your uploaded video but it is not working. Can you please help me regarding this. This will help me a lot in bioinformatic. I m waiting for your reply. Thank you
@Sjjeien 2 ай бұрын
I would like to watch the full tutorial. But your accent it too hard to get. Sorry
@openyard Ай бұрын
words such as tutorial, task, control, variant are pronounced differently here.
@Roma395 2 ай бұрын
Thank you for your video, it has been very beneficial to me. May I ask, I am now using vcftools for pi or fst analysis, how should I set the window size and step size?
@MayankNair96 2 ай бұрын
Great tutorial! Really easy to follow for someone like me who had never used Python before
@LingyuHELyric 2 ай бұрын
hi Coach, I met with this issue: FATAL: while extracting /home/lyhe/.singularity/cache/oci-tmp/7ddae9be99ba04db37484ae3ac2f99a02f6c03bf79b214a6f1d5336dacae4763: root filesystem extraction failed: extract command failed: ERROR : Failed to create user namespace: user namespace disabled. How can I solve this, please
@LingyuHELyric 2 ай бұрын
hi Coach, I met with this issue: FATAL: while extracting /home/lyhe/.singularity/cache/oci-tmp/7ddae9be99ba04db37484ae3ac2f99a02f6c03bf79b214a6f1d5336dacae4763: root filesystem extraction failed: extract command failed: ERROR : Failed to create user namespace: user namespace disabled. How can I solve this, please
@RuthPitka-m1f 2 ай бұрын
Sanford Port
@LeightonSteward-q9x 2 ай бұрын
Stamm Junction
@chisomojiaku7179 2 ай бұрын
What if the data doesnt have a pvalue or logfold
@bikasbasnet9907 2 ай бұрын
Hi sir, Besides this DESeq2 package, which can be used for gene expression analysis, I am asking you due to my version of R studio does not have such package
@gizemvonal7982 2 ай бұрын
Answers 1. 13 nucleotids 2. GC percentage= 46.15384615384615 3. purines= 9 4.Pyriminidines= 4 5.Percentage of Purines= 69.23076923076923
@recongraves 2 ай бұрын
Thank you
@jhenniferjulia7705 2 ай бұрын
Vc me salvouuuu
@HicksMaxine-p4p 2 ай бұрын
Mason Forks
@DB-kv3wu 2 ай бұрын
Best!❤❤❤❤
@ezequielpulicari6734 2 ай бұрын
I like the tutorial but you script is working because you comment the download process in the workflow. If I ran the processes separately, it works. But, when I tried to run everything I get errors and I don't know how to solve it
@PaulDavis-v4y 2 ай бұрын
Celestino Branch
@Sjjeien 2 ай бұрын
Cant even understand your accent.
@kushalsingh7611 2 ай бұрын
Thank you
@suvarnakapale6482 2 ай бұрын
How to work on windows
@Sjjeien 2 ай бұрын
why using these web application to run codes? actually frustrating use pycharm or any ide to taught..
@pramodprakash2097 2 ай бұрын
Sir my runn8ng status is showing E instead of R. What can I do now.
@wilfriedvanhees 2 ай бұрын
The video was very instructive, but it doesn't deliver what's in the title. I watched the whole video and you didn't run anaconda.
@dr.suryanarayanrath6613 3 ай бұрын
your example data is not available. prokka tool can be done standalone. its about galaxy web server, so plz make a proper arranger arrangement of example data
@adrianguinrizzo2735 3 ай бұрын
Does this work in Windows Subsystem for Linux in windows?
@michabanz2711 3 ай бұрын
Awesome, thank you so much! I had problems setting up RStudio on my Ubuntu 24.04 but in the conda-environement it works like a charm 🙂
@silvereyes000 3 ай бұрын
Please do a video on how to perform variant calling by gatk via terminal