3dmod 3dmodv addtostack adocxmlconv alignframes alignlog alterheader archiveorig assemblevol autofidseed autopatchfit avganova avgstack avgstatplot b3dcatfiles b3dcopy b3dhostname b3dremove b3dtouch b3dwinps batchruntomo beadtrack binvol blendmont boxavg boxstartend calc ccderaser checkmtmod checkxforms chunksetup clip clipmodel clonemodel clonevolume collectmmm colornewst combinefft contourmod convertmod copyheader copytomocoms corrsearch3d cryoposition ctfphaseflip ctfplotter densmatch densnorm dm2mrc dm3props dualvolmatch echo2 edgeeraser edgemtf edgepatches edmont edpiecepoint endmodel enhance eraser etomo etomo.jar etomoPluginDemo excise excludeviews expandargs extposition extractmagrad extractpieces extracttilts extstack fenestra fftrans fiberpitch filltomo filterplot findbeads3d findcontrast finddistort findgradient findhotpixels findsection findsirtdiffs findwarp finishjoin fitpatches fixboundaries fixmont flattenwarp framewatcher genhstplt goodframe gpumonitor gputilttest header howflared idfprocess imavgstat imod imod2meta imod2obj imod2patch imod2rib imod2vrml imod2vrml2 imodauto imodchopconts imodcpuload imodcurvature imod-dist imodexplode imodextract imodfillin imodfindbeads imodhelp imodinfo imodjoin imodkillgroup imodmesh imodmop imodpsview imodqtassist imodsendevent imodsetvalues imodsortsurf imodtrans imoduntar imodv joinmodel joinwarp2model makecomfile makegradtable makejoincom makepyramid MarkersCorrespond matchorwarp matchrotpairs matchshifts matchvol maxjoinsize midas model2point montagesize mrc2tif mrcbyte mrctaper mrcx mtdetect mtffilter mtk mtlengths mtmodel mtoverlap mtpairing mtrotlong mtsmooth mtteach nad_eed_3d nda newstack numericdiff onegenplot onepatchcorr patch2imod patchcorr3d patchcrawl3d pickbestseed point2model preNAD preNID processchunks prochunks.csh queuechunk RAPTOR raw2mrc rawtiltcoords realscalemod rec2imod recombine reducecont reducemont reducemtmod refinematch remapmodel repackseed resamplemod restrictalign rotatevol rotmont runimodqtapp runraptor sampletilt scalemodel sda selfalign setlibpath settmpdir setupcombine setupcoms setuplong setupstitch sirtsetup slashfindspheres slashmasksort slurmCleanup.sh slurmInit.sh smoothsurf solvematch sortbeadsurfs splitblend splitcombine splitcorrection splitmrc splittilt squeezevol startprocess stitchalign subimage subimanova subimstat subm submfg subtomosetup subtractcurves sumdensity taperoutvol tapervoledge tif2mrc tilt tiltalign tiltxcorr tomodataplots tomopieces tomopitch tomosnapshot tomostitch transferfid trimvol vmstocsh vmstopy warpvol wmod2imod xcorrstack xf2rotmagstr xfalign xfforfidless xfinterstack xfinverse xfjointomo xfmodel xfproduct xfsimplex xftoxg xyzproj