What is LiftOver? | 3 Methods to Convert Genome Coordinates Efficiently скачать в хорошем качестве

What is LiftOver? | 3 Methods to Convert Genome Coordinates Efficiently

▸ Welcome to my comprehensive guide on LiftOver and genome coordinate conversion methods! In this video, we'll explore the concept of LiftOver, a powerful tool for converting genome coordinates between different assemblies. In this video I explain what is #LiftOver, when to use and when NOT to use and demonstrate three efficient methods for converting genome coordinates using LiftOver and similar tools. Method 1: UCSC Genome Browser Method 2: Command Line Tools (CrossMap) Method 3: R/Bioconductor Packages By the end of this video, you'll have a solid understanding of how to use LiftOver to seamlessly convert genome coordinates and enhance your bioinformatics workflows. Don't forget to like, share, and subscribe for more insightful tutorials! I look forward to your comments under the comments section! ▸ R script - rtracklayer https://github.com/kpatel427/YouTubeT... ▸ What is the difference between hg19 and hg38?    • What is hg19/hg38? - All you need to know ...   ▸ Using Conda and virtual environments    • Demystifying Conda (Anaconda, Miniconda an...   ▸ SNP conversion FAQ by UCSC liftOver https://genome.ucsc.edu/FAQ/FAQreleas... ▸ CrossMap vignette https://crossmap.readthedocs.io/en/la... ▸ 0 based and 1 based coordinate system https://www.biostars.org/p/84686/ Chapters: 0:00 Intro 0:37 What is LiftOver? 2:11 Using UCSC LiftOver: When to use and When NOT to use? 4:23 Sources available to convert genomic coordinates across assemblies 6:37 Method 1: Using LiftOver on UCSC genome browser 9:33 Method 2: Using CrossMap 13:08 Method 3: Using R package: rtracklayer Show your support and encouragement by buying me a coffee: https://www.buymeacoffee.com/bioinfor... To get in touch: Website: https://bioinformagician.org/ Github: https://github.com/kpatel427 Email: khushbu_p@hotmail.com #bioinformagician #bioinformatics #liftover #ucscgenomebrowser #crossmap #rtracklayer #signac #atacseq #atac #seurat #singlecell #singler #illumina #bridgeamplification #sequencingbysynthesis #multiplex #alleles #10x #oxfordnanopore #pacbio #affymetrix #barcode #setseed #reproducibility #pseudorandom #singleR #singlecell #annotationdbi #reversestranded #directstranded #strandedness #survival #survminer #survivalanalysis #kaplanmeier #tcga #gdcportal #tcgaportal #nci #cran #bioconductor #funcotator #variantcalling #variants #gatk #vcf #gvcf #haplotype #alleles #geneticvariants #mutations #gff3 #gff #gtf #sam #bam #phred #fasta #fastq #singlecell #10X #ensembl #biomart #annotationdbi #annotables #affymetrix #microarray #affy #ncbi #genomics #beginners #tutorial #howto #omics #research #biology #GEO #rnaseq #ngs