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• Category:User Developed Scripts
  Scripts developed by users for various tasks
  32 members (0 subcategories, 3 files) - 17:53, 15 August 2006

Page text matches

• File:ParseBlatOutput zip.txt [[Category:User Developed Scripts]] (1 KB) - 19:04, 23 March 2007

• BedTotalSize
  [[Category:User Developed Scripts]]
  170 bytes (31 words) - 09:16, 15 September 2006

• File:BlatBot pl.txt [[Category:User Developed Scripts]] (5 KB) - 07:41, 1 September 2018

• File:FixStepToBedGraph pl.txt [[Category:User Developed Scripts]] (2 KB) - 13:39, 24 November 2010

• BedFrag
  [[Category:User Developed Scripts]]
  401 bytes (45 words) - 10:06, 28 September 2006
• Little Tools
  ; [[log]] little scripts to keep logfiles of what you are doing, very handy (bash) [[Category:User Developed Scripts]]
  1 KB (185 words) - 13:44, 24 June 2010
• Blat Scripts
  ...e notify me by selecting the e-mail user link from the side menu bar at: [[User:Hartera]] [[Category:User Developed Scripts]]
  2 KB (284 words) - 22:50, 13 September 2011
• BedInverseExons
  ...ommon for biologists, they usually call the most upstream one exon 1. This scripts inverses the numbers. [[Category:User Developed Scripts]]
  937 bytes (142 words) - 12:10, 8 October 2007
• BedOverlapName
  [[Category:User Developed Scripts]]
  506 bytes (62 words) - 21:41, 26 October 2006
• Bed2UCSC
  [[Category:User Developed Scripts]]
  843 bytes (149 words) - 18:06, 24 August 2010
• BedRegion
  [[Category:User Developed Scripts]]
  1 KB (96 words) - 23:37, 9 September 2006
• TextReplace
  ...constructs) and it was very slow. Replacing 18000 strings with one big sed scripts takes ages. This script is reasonable fast while still being very simple. O [[Category:User Developed Scripts]]
  2 KB (327 words) - 23:50, 18 March 2007
• Log
  [[Category:User Developed Scripts]]
  1 KB (249 words) - 17:49, 15 February 2015
• Blastz
  ...sultsPanel.Pubmed_RVDocSum Blastz] is a nucleotide local alignment program developed by Webb Miller's group at PSU (http://www.bx.psu.edu/miller_lab/). It take ...rtz, collaborating with [[User:Jimkent|Jim]], developed blastz and wrapper scripts to improve its performance to the point where an alignment of the whole gen
  4 KB (660 words) - 19:26, 29 August 2018
• PslProtCnv
  [[Category:User Developed Scripts]]
  2 KB (194 words) - 17:14, 18 January 2007
• BedProject
  [[Category:User Developed Scripts]]
  3 KB (258 words) - 23:34, 14 August 2006
• BedBlastLift
  ...east a hint where it should be roughly located. This is what the following scripts does. It needs the bed file from sequence1 and the result from tblastx with [[Category:User Developed Scripts]]
  5 KB (714 words) - 17:07, 19 September 2006
• Main Page
  ...:User Developed Scripts| User Developed Scripts]] - helpful hints from the user community
  5 KB (773 words) - 21:15, 26 February 2019
• Ucsc
  #ncftpput -u $USER -p $PASS $SERVER $UPLOADPATH $1 > /dev/null [[Category:User Developed Scripts]]
  2 KB (329 words) - 07:30, 1 September 2018
• Source tree compilation on Debian/Ubuntu
  Please note the instructions and scripts in the source tree that can build the kent source tree on DIRS='SCRIPTS=/usr/local/bin CGI_BIN=/usr/lib/cgi-bin DOCUMENTROOT=/var/www/genome BINDIR
  5 KB (842 words) - 07:32, 1 September 2018
• Fetch fasta sequence for identifier list
  mysql --user=genome --host=genome-mysql.soe.ucsc.edu -A -N \ [[Category:User Developed Scripts]]
  2 KB (346 words) - 07:56, 1 September 2018
• Browser Track Construction
  The consistency of the file directory hierarchy allows automatic scripts to perform many [[Category:User Developed Scripts]]
  6 KB (966 words) - 21:01, 23 April 2013
• Window Masker
  [[Category:User Developed Scripts]]
  4 KB (534 words) - 21:04, 23 April 2013
• Genscan
  [[Category:User Developed Scripts]]
  4 KB (578 words) - 21:02, 23 April 2013
• Minimal Steps For LiftOver
  [[Category:User Developed Scripts]]
  4 KB (648 words) - 15:18, 26 April 2018
• Finding nearby genes
  one of the examples below. These scripts will find the nearest transcripts (upstream and downstream) from your reference point, and report the gene name also. The last two scripts (for hg19 & hg38) will
  18 KB (2,337 words) - 15:24, 17 July 2018
• CPG Islands
  [[Category:User Developed Scripts]]
  5 KB (680 words) - 21:02, 23 April 2013
• TRF Simple Repeats
  [[Category:User Developed Scripts]]
  6 KB (847 words) - 20:36, 2 July 2015
• BedFlanking
  [[Category:User Developed Scripts]]
  10 KB (1,152 words) - 15:14, 12 September 2006
• Hiram Tasks Done
  ===Return to: [[User:Hiram#To_Do_List|To Do List]]=== <li>apache log analysis to discern country and user profiles for annual reports(2011-03-14)</li>
  15 KB (2,552 words) - 14:50, 27 June 2011
• RepeatMasker
  [[Category:User Developed Scripts]]
  10 KB (1,434 words) - 08:09, 1 September 2018
• Tuning-primer.sh
  ...xtended. Download from mysqltuner.com, link is on the right-hand side. --[[User:Max|Max]] 18:03, 25 February 2010 (UTC)) read -p "User: " user
  45 KB (4,849 words) - 15:50, 10 March 2016