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Variant Annotation and effect prediction with snpeff
>> YOUR LINK HERE: ___ http://youtube.com/watch?v=Fcd3e9jT-7I
Get the bash script here: / 86694196 • Variant effect prediction and annotation wth snpeff | Bacterial Genomes • Thank me with a Coffee • https://www.buymeacoffee.com/informat... • Support My Work • / bigdataanalytics • https://www.buymeacoffee.com/informat... • https://www.paypal.com/paypalme/thein... • Get more bioinformatics tutorials on Patreon: / bigdataanalytics • Teaching(Video Conferencing): https://calendly.com/bioinformaticscoach • Consultation(Video Conferencing): https://calendly.com/bioinformaticscoach • Consultation(Audio Call): https://clarity.fm/vincentappiah • Subscribe to my channels • Bioinformatics: / @bioinformaticscoach • Data Science: / @datasciencecoach • Short Clips: / @bioinformaticscforbeginners • Reach out • [email protected] • • datasets: https://github.com/vappiah/bioinforma... • download snpeff: https://pcingola.github.io/SnpEff/dow... • snpeff options: https://pcingola.github.io/SnpEff/se_... • snpeff : https://pcingola.github.io/SnpEff/se_... • snippy: https://github.com/tseemann/snippy/tr... • How to install bcfools • conda: • Install BCFTOOLS in Linux using anaco... • build from source: • How to install BCFTOOLS in any Linux ... • • How to Install JAVA • • Install java in linux using binaries ... • • Java installation in any windows mach... • • 00:00 Intro • 00:41 Open the terminal • 00:44 Create a working directory and cd into it • 01:00 Download, Install and Set up snpEff • 03:57 Download the example VCF data to be used for the variant effect prediction • 08:14 Normalize the vcf file with bcftools • 12:08 Check the available databases in snpeff for variant effect prediction • 15:54 Download the snpeff database for our bacteria strain (Mycobacterium ulcerans) • 18:56 Variant Effect Prediction with snpeff • 22:50 Dealing with the issue ERROR_CHROMOSOME_NOT_FOUND in snpeff • 39:54 Save the the snpeff result to an output file • 40:50 Explore the Output • 41:30 Generate Statistics Summary • 42:30 Explore the Output • • • How to Predict variant effect prediction and annotation wth snpeff • Bacterial variant effect prediction wth snpeff • Variant Effect Prediction with VCF • Variant Effect Prediction with VCF in snpeff • Variant Effect Prediction with VC snpeff and cfff • • bioinformatics for beginners • bioinformatics tutorial • bioinformatics course • Bioinformatics Project • • #bioinformaticsforbeginners #bioinformatics #bioinformática #linuxforbeginners #linux
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