Good Morning Idit: Perhaps your home made script has an error.
You can extract sequence directly from the hg18.2bit file with the twoBitToFa program in the kent source tree. You do not need to create nib files from the 2bit file. Use the 2bit file directly and the kent programs to extract sequence from them. --Hiram ----- Original Message ----- From: "Idit Kosti" <[email protected]> To: [email protected] Sent: Wednesday, March 23, 2011 2:53:44 AM Subject: [Genome] hg18 nib files Hello, I'm running a home made script on hg18 nib files extracted from hg18.2bit. For a small number of entries, no sequence is found. When I search for the exact same coordinates on the web genome browser, I'm able to find the position and download the sequence. Any idea how to solve this issue? my hg18.2bit is the updated version available on your website. Thanks a lot in advance, Idit -- Idit Kosti Computational Molecular Biology Lab, Faculty of Biology Technion - Israel Institute of Technology Haifa, Israel 972-4-8294258 _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
