uniprobe2meme

Usage:

uniprobe2meme [options]

Description

Converts UNIPROBE matrices from standard input into a MEME motif file suitable for use with MEME Suite programs. You may concatenate files for more than one motif.

Input

Reads UNIPROBE matrices from standard input.

Concatenated UNIPROBE files describe one or more motifs. Each motif has a header line and a position-weight matrix.

Example
Arid3a_primary A: 0.179645793597971 0.210100830864919 0.18297957170479 0.218158426414591 0.0870705802557497 0.0435293344848582 0.695645391274696 0.886231513936226 0.105526350481291 0.112302355076614 0.815030478488063 0.719906706101697 0.598597229834128 0.469818137392637 0.233954380973979 0.267838631058226 0.240559605564699 C: 0.266648735950844 0.218430924209102 0.213084153545938 0.203797703013696 0.110886816294852 0.0958703394836635 0.0104078225875119 0.00354104133931097 0.00470109424317215 0.181644431061179 0.045569847543415 0.0821358973477016 0.0458429114703258 0.282556547844063 0.229160661497462 0.231747372592299 0.300737862311012 G: 0.382823288901203 0.353259680323954 0.340965693699501 0.18760023292416 0.0821358973477016 0.045569847543415 0.181644431061179 0.00470109424317215 0.00354104133931097 0.0104078225875119 0.0958703394836635 0.110886816294852 0.0853202791343203 0.0573452956112842 0.190290024780233 0.133765504128307 0.201112183210201 T: 0.170882181549982 0.218208564602024 0.262970581049772 0.390443637647554 0.719906706101697 0.815030478488063 0.112302355076614 0.105526350481291 0.886231513936226 0.695645391274696 0.0435293344848582 0.0870705802557497 0.270239579561226 0.190280019152016 0.346594932748325 0.366648492221168 0.257590348914088 Arid5a_primary A: 0.177322769961677 0.160221841004699 0.852203018833067 0.961248539596473 0.0565398220443113 0.930330589214641 0.019950864688249 0.0411316382396864 0.233918811349109 0.339577406902739 0.285389335391289 0.572142692856743 0.285668980971376 0.342798848206545 C: 0.428313310855555 0.324571292259573 0.0267326703147277 0.00379831572782298 0.00400812936891674 0.0051379987521542 0.0141888286179256 0.0875059354874809 0.027935175632631 0.352987545623934 0.13471914100935 0.0784175907242025 0.184067740053308 0.230459946341397 G: 0.22903578216647 0.0324446387621822 0.073955464568744 0.0101183390736629 0.00787744708407332 0.00713820083753976 0.00678864795483705 0.0390246666857379 0.519604520580082 0.184315929397724 0.268289476918125 0.190434321213762 0.262198874546343 0.153946120466092 T: 0.165328137016298 0.482762227973546 0.0471088462834612 0.0248348056020407 0.931574601502699 0.057393211195665 0.959071658738988 0.832337759587095 0.218541492438178 0.123119118075603 0.311602046681237 0.159005395205293 0.268064404428973 0.272795084985967

Output

Options

Option Parameter Description Default Behavior
General Options
-sgsg_file_name File containing motif name and ID in 2 columns. The second column is substituted for MOTIF_NAME in the URL if -url is given. The motif name is substituted for MOTIF_NAME.