Tweet
Anyone help me to draw SNPs density of 100kb windows from VCF file.
Thanks!
Thanks!
-
-
Open the VCF file in the latest version of IGV, then zoom out until your desired interval. You can then save the image as PNG or SVG. -
Try UCSC genome browser. It handles VCF files as a custom track ...
http://genome.ucsc.edu/cgi-bin/hgCustom (specify your genome and build ). This link may not
work if you haven't visited the UCSC page before. It needs some cookie variables set first.
This is the "add custom tracks" button available from the hgTracks page at the UCSC genome browser site.
Just google "UCSC genome browser " and go browse your favourite genome to set up your UCSC specific cookies.
Last edited by Richard Finney; 05-14-2015, 05:33 PM.Comment
-
Thanks all, but I want to create a plot like the below image...Comment
-
"squish" mode for your custom UCSC track should do thatComment
-
During the COVID-19 pandemic, scientists observed that while some individuals experienced severe illness when infected with SARS-CoV-2, others were barely affected. These disparities left researchers and clinicians wondering what causes the wide variations in response to viral infections and what role genetics plays.
Jean-Laurent Casanova, M.D., Ph.D., Professor at Rockefeller University, is a leading expert in this crossover between genetics and infectious...09-09-2024, 10:59 AM -
The first FDA-approved CRISPR-based therapy marked the transition of therapeutic gene editing from a dream to reality1. CRISPR technologies have streamlined gene editing, and CRISPR screens have become an important approach for identifying genes involved in disease processes2. This technique introduces targeted mutations across numerous genes, enabling large-scale identification of gene functions, interactions, and pathways3. Identifying the full range...08-27-2024, 04:44 AM
Comment