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changeset 7:38e95e99ea6b draft

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Uploaded
author kevyin
date Tue, 06 Nov 2012 00:31:27 -0500
parents 61d2d2674176
children cec8f00a50c1
files tool-data/meme_chip_motifs.loc.sample
diffstat 1 files changed, 27 insertions(+), 27 deletions(-) [+]
line wrap: on
line diff
--- a/tool-data/meme_chip_motifs.loc.sample	Tue Nov 06 00:02:56 2012 -0500
+++ b/tool-data/meme_chip_motifs.loc.sample	Tue Nov 06 00:31:27 2012 -0500
@@ -1,31 +1,31 @@
 # value name path
-JASPAR CORE     JASPAR CORE     /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009.meme
+JASPAR CORE JASPAR CORE /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009.meme
 JASPAR CORE vertebrates JASPAR CORE vertebrates /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009_vertebrates.meme
-JASPAR CORE fungi       JASPAR CORE fungi       /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009_fungi.meme
-JASPAR CORE insects     JASPAR CORE insects     /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009_insects.meme
-JASPAR CORE nematodes   JASPAR CORE nematodes   /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009_nematodes.meme
-JASPAR CORE plants      JASPAR CORE plants      /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009_plants.meme
-JASPAR CORE urochordates        JASPAR CORE urochordates        /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009_urochordates.meme
-JASPAR PHYLOFACTS       JASPAR PHYLOFACTS       /home/kevyin/bin/meme/db/motif_databases/JASPAR_PHYLOFACTS_2008.meme
-JASPAR FAM      JASPAR FAM      /home/kevyin/bin/meme/db/motif_databases/JASPAR_FAM_2008.meme
-JASPAR POLII    JASPAR POLII    /home/kevyin/bin/meme/db/motif_databases/JASPAR_POLII_2008.meme
-JASPAR CNE      JASPAR CNE      /home/kevyin/bin/meme/db/motif_databases/JASPAR_CNE_2008.meme
-JASPAR SPLICE   JASPAR SPLICE   /home/kevyin/bin/meme/db/motif_databases/JASPAR_SPLICE_2008.meme
-UniPROBE/BEEML-PBM (Zhao and Stormo 2011)       UniPROBE/BEEML-PBM (Zhao and Stormo 2011)       /home/kevyin/bin/meme/db/motif_databases/zhao2011.meme
-Human and Mouse (Jolma2010)     Human and Mouse (Jolma2010)     /home/kevyin/bin/meme/db/motif_databases/jolma2010.meme
-Human and Mouse (MacIsaac THEME)        Human and Mouse (MacIsaac THEME)        /home/kevyin/bin/meme/db/motif_databases/macisaac_theme.v1.meme
-Prokaryotes (Prodoric Release 8.9)      Prokaryotes (Prodoric Release 8.9)      /home/kevyin/bin/meme/db/motif_databases/prodoric.meme
-Prokaryotes (RegTransBase v4)   Prokaryotes (RegTransBase v4)   /home/kevyin/bin/meme/db/motif_databases/regtransbase.meme
-Drosophila (FLYREG; Bergman & Pollard v2)       Drosophila (FLYREG; Bergman & Pollard v2)       /home/kevyin/bin/meme/db/motif_databases/flyreg.v2.meme
-Drosophila (DMMPMM; Kulakovskiy et al. 2009)    Drosophila (DMMPMM; Kulakovskiy et al. 2009)    /home/kevyin/bin/meme/db/motif_databases/dmmpmm2009.meme
-Drosophila (iDMMPMM; Kulakovskiy et al. 2009)   Drosophila (iDMMPMM; Kulakovskiy et al. 2009)   /home/kevyin/bin/meme/db/motif_databases/idmmpmm2009.meme
-Homeodomains (Berger et al.)    Homeodomains (Berger et al.)    /home/kevyin/bin/meme/db/motif_databases/homeodomain.meme
-Mouse (UniPROBE)        Mouse (UniPROBE)        /home/kevyin/bin/meme/db/motif_databases/uniprobe_mouse.meme
-Mouse (Chen2008)        Mouse (Chen2008)        /home/kevyin/bin/meme/db/motif_databases/chen2008.meme
-ETS factors (Wei et al. 2010)   ETS factors (Wei et al. 2010)   /home/kevyin/bin/meme/db/motif_databases/wei2010*.meme
-E. coli (DPINTERACT)    E. coli (DPINTERACT)    /home/kevyin/bin/meme/db/motif_databases/dpinteract.meme
-GLIs and TCF7L2/TCF4 (Hallikas et al. 2006)     GLIs and TCF7L2/TCF4 (Hallikas et al. 2006)     /home/kevyin/bin/meme/db/motif_databases/hallikas2006.meme
+JASPAR CORE fungi JASPAR CORE fungi /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009_fungi.meme
+JASPAR CORE insects JASPAR CORE insects /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009_insects.meme
+JASPAR CORE nematodes JASPAR CORE nematodes /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009_nematodes.meme
+JASPAR CORE plants  JASPAR CORE plants  /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009_plants.meme
+JASPAR CORE urochordates  JASPAR CORE urochordates  /home/kevyin/bin/meme/db/motif_databases/JASPAR_CORE_2009_urochordates.meme
+JASPAR PHYLOFACTS JASPAR PHYLOFACTS /home/kevyin/bin/meme/db/motif_databases/JASPAR_PHYLOFACTS_2008.meme
+JASPAR FAM  JASPAR FAM  /home/kevyin/bin/meme/db/motif_databases/JASPAR_FAM_2008.meme
+JASPAR POLII  JASPAR POLII  /home/kevyin/bin/meme/db/motif_databases/JASPAR_POLII_2008.meme
+JASPAR CNE  JASPAR CNE  /home/kevyin/bin/meme/db/motif_databases/JASPAR_CNE_2008.meme
+JASPAR SPLICE JASPAR SPLICE /home/kevyin/bin/meme/db/motif_databases/JASPAR_SPLICE_2008.meme
+UniPROBE/BEEML-PBM (Zhao and Stormo 2011) UniPROBE/BEEML-PBM (Zhao and Stormo 2011) /home/kevyin/bin/meme/db/motif_databases/zhao2011.meme
+Human and Mouse (Jolma2010) Human and Mouse (Jolma2010) /home/kevyin/bin/meme/db/motif_databases/jolma2010.meme
+Human and Mouse (MacIsaac THEME)  Human and Mouse (MacIsaac THEME)  /home/kevyin/bin/meme/db/motif_databases/macisaac_theme.v1.meme
+Prokaryotes (Prodoric Release 8.9)  Prokaryotes (Prodoric Release 8.9)  /home/kevyin/bin/meme/db/motif_databases/prodoric.meme
+Prokaryotes (RegTransBase v4) Prokaryotes (RegTransBase v4) /home/kevyin/bin/meme/db/motif_databases/regtransbase.meme
+Drosophila (FLYREG; Bergman & Pollard v2) Drosophila (FLYREG; Bergman & Pollard v2) /home/kevyin/bin/meme/db/motif_databases/flyreg.v2.meme
+Drosophila (DMMPMM; Kulakovskiy et al. 2009)  Drosophila (DMMPMM; Kulakovskiy et al. 2009)  /home/kevyin/bin/meme/db/motif_databases/dmmpmm2009.meme
+Drosophila (iDMMPMM; Kulakovskiy et al. 2009) Drosophila (iDMMPMM; Kulakovskiy et al. 2009) /home/kevyin/bin/meme/db/motif_databases/idmmpmm2009.meme
+Homeodomains (Berger et al.)  Homeodomains (Berger et al.)  /home/kevyin/bin/meme/db/motif_databases/homeodomain.meme
+Mouse (UniPROBE)  Mouse (UniPROBE)  /home/kevyin/bin/meme/db/motif_databases/uniprobe_mouse.meme
+Mouse (Chen2008)  Mouse (Chen2008)  /home/kevyin/bin/meme/db/motif_databases/chen2008.meme
+ETS factors (Wei et al. 2010) ETS factors (Wei et al. 2010) /home/kevyin/bin/meme/db/motif_databases/wei2010*.meme
+E. coli (DPINTERACT)  E. coli (DPINTERACT)  /home/kevyin/bin/meme/db/motif_databases/dpinteract.meme
+GLIs and TCF7L2/TCF4 (Hallikas et al. 2006) GLIs and TCF7L2/TCF4 (Hallikas et al. 2006) /home/kevyin/bin/meme/db/motif_databases/hallikas2006.meme
 Worm (UniPROBE) Worm (UniPROBE) /home/kevyin/bin/meme/db/motif_databases/uniprobe_worm.meme
 Malaria (Campbell et al. 2010)  Malaria (Campbell et al. 2010)  /home/kevyin/bin/meme/db/motif_databases/campbell2010_malaria_pbm.meme
-Yeast (MacIsaac v1)     Yeast (MacIsaac v1)     /home/kevyin/bin/meme/db/motif_databases/macisaac_yeast.v1.meme
-Yeast (SCPD)    Yeast (SCPD)    /home/kevyin/bin/meme/db/motif_databases/scpd_matrix.meme
+Yeast (MacIsaac v1) Yeast (MacIsaac v1) /home/kevyin/bin/meme/db/motif_databases/macisaac_yeast.v1.meme
+Yeast (SCPD)  Yeast (SCPD)  /home/kevyin/bin/meme/db/motif_databases/scpd_matrix.meme