Very helpful video , thank you!! I am not really familiar with bioinformatics and in this part of my project, I am trying two compare two VCF files corresponding to the results of healthy tissue and tumor tissue. I want to compare these VCF files and remove their similarities. More specific I want to remove the information of the healthy tissue from the tumor one. Have you any suggestions on which tool I should use or any way that I can do my analysis? thank you in advance!
Hello Am currenly working on a theme: use of neural network to identify somatic variations, i would ask you if u have an idea from where can i get suitable dataset Thank you
How about translocation? Translocation is another form of structural variation where non homologous chromosomes break apart and rejoin back to each other chromosomes by DNA repair machinery.
Hello I had done the whole genome sequence by NGS (Illumina) of the bacteria. The files I received from the company are Fastaq1, Fastaq2, Filtered 1 Fastq Filtered 2 Fastq and analysis results file include :rmdup.bam.bai, rmdup.bam, filtered vcf and annotated vcf. Please tell me which of these files should be converted to FASTA and submitted to NCBI? Thanks
I've been lost trying to understand differences between FASTA, FASTQ, VCF, and CRAM for some days now, and I finally get it. thanks for this video!
Really appreciate this series, thanks! Your descriptions are clear and easy to understand.
This was very helpful. Thanks :)
How to convert numerical GT format to letter or nucleotide GT format???
Thanks dude
Very helpful video , thank you!! I am not really familiar with bioinformatics and in this part of my project, I am trying two compare two VCF files corresponding to the results of healthy tissue and tumor tissue. I want to compare these VCF files and remove their similarities. More specific I want to remove the information of the healthy tissue from the tumor one. Have you any suggestions on which tool I should use or any way that I can do my analysis? thank you in advance!
Hello
Am currenly working on a theme: use of neural network to identify somatic variations, i would ask you if u have an idea from where can i get suitable dataset
Thank you
Are you looking for fastq? I usually look at SRA for those raw data
How about translocation? Translocation is another form of structural variation where non homologous chromosomes break apart and rejoin back to each other chromosomes by DNA repair machinery.
Any tutorial on how to parse a vcf file in python\ R?
probably late but for R use vcfR package.
great，are you malaysia？
Yap, I am Malaysian
@@LiquidBrain
thank you for your video ，later maybe you will introduction gatk？
Hello
I had done the whole genome sequence by NGS (Illumina) of the bacteria. The files I received from the company are Fastaq1, Fastaq2, Filtered 1 Fastq Filtered 2 Fastq and analysis results file include :rmdup.bam.bai, rmdup.bam, filtered vcf and annotated vcf. Please tell me which of these files should be converted to FASTA and submitted to NCBI? Thanks
that really depends where you submitting to, is it SRA?
@@LiquidBrain I want to registr this sequence. May be SRA or others that can you guide me.