search for: cnv

Hi, In addition to GADA, what are the available package in R and bioconductor to analyze amplification, deletion, LOH and indels of CNV, SNP data? Any reference is welcome. Best, Carol

...tle farther down: > > APInt OV = > cast<ConstantSDNode>(Offset)->getAPIntValue(); > if (AM == ISD::PRE_DEC) > OV = -OV; > > ConstantSDNode *CN = > cast<ConstantSDNode>(OtherUses[i]->getOperand(OffsetIdx)); > APInt CNV = CN->getAPIntValue(); > if (OtherUses[i]->getOpcode() == ISD::SUB && OffsetIdx == 1) > CNV += OV; > else > CNV -= OV; > > perhaps something here is not quite right. I suspect that the first snippet (where OV is inverted) is wrong because ARM...

Author: eschrock Repository: /hg/zfs-crypto/gate Revision: 975fad4fa05753c23a18254797cce42bb33b4375 Log message: 6433264 crash when adding spare: nvlist_lookup_string(cnv, "path", &path) == 0 6433406 zfs_open() can leak memory on failure 6433408 namespace_reload() can leak memory on allocation failure 6433679 zpool_refresh_stats() has poor error semantics 6433680 changelist_gather() ignores libuutil errors Files: update: usr/src/cmd/zpool/zpool_main....

...is a problem somewhere. The relevant code is a little farther down: APInt OV = cast<ConstantSDNode>(Offset)->getAPIntValue(); if (AM == ISD::PRE_DEC) OV = -OV; ConstantSDNode *CN = cast<ConstantSDNode>(OtherUses[i]->getOperand(OffsetIdx)); APInt CNV = CN->getAPIntValue(); if (OtherUses[i]->getOpcode() == ISD::SUB && OffsetIdx == 1) CNV += OV; else CNV -= OV; perhaps something here is not quite right. -Hal > > Thanks in advance, > Dmitry > > > > >

Hello Hal, I have a strong suspicion that your constant folding optimization introduced at r174746 is broken on ARM. There is a bug about it: http://llvm.org/bugs/show_bug.cgi?id=15581 There is no such issue with 3.2, and reverting r174746 on top of r178740 also fixes the problem. I'm trying to fix it myself, but still have no good ideas; so it would be great to have an advice from you.

...t;UTF-8"){ # Semi-smart conversion of a dataframe between charsets. # Needed to ease use of those [@!] Excel files # that have survived the Win3.1 --> Win95 --> NT transition, # usually in poor shape.. conv1<-function(v,from,to) { condconv<-function(v,from,to) { cnv<-is.na(iconv(v,to,to)) v[cnv]<-iconv(v[cnv],from,to) return(v) } if (is.factor(v)) { l<-condconv(levels(v),from,to) levels(v)<-l return(v) } else if (is.character(v)) return(condconv(v,from,to)) else return(v) } for(i in names(d)) d[...

...;t find the register class", file TargetRegisterInfo.cpp, line 112 The following llvm causes this : define void @specialBreak(i8* %out) nounwind { entry: %out.addr = alloca i8*, align 4 store i8* %out, i8** %out.addr, align 4 %0 = load i8** %out.addr, align 4 %call = call signext i8 @cnv(i8* %0) %1 = load i8** %out.addr, align 4 %arrayidx = getelementptr inbounds i8* %1, i32 0 store i8 %call, i8* %arrayidx, align 1 ret void } declare signext i8 @cnv(i8*) Now originally (at the time I hadn't added 8/16 bit register support) I had made the calling convention return valu...

...not being used and instead the central repository is being used. We've even tried modifying .libPaths( ) so that our local path is first in the search list. Is this a bug or a "feature"? For example: > install.packages('DBI',lib='/data1/bsi/epi/s105816.SNPlinkage/CNV/rlib') > library(DBI, lib.loc='/data1/bsi/epi/s105816.SNPlinkage/CNV/rlib') I can look in my directory and see that DBI is version 0.2-5, but when I use the library command I get the version installed in the central location instead of in my specified directory. > library(h...

...storage/overlay/l/QNYZ757HCAAQMJJZUZ6D452CSS,upperdir=/var/lib/containers/storage/overlay/76d93cb1256f566100ec2a7e5b5c4b84acc0bfa6a3cb4ebe0adbdb4a0ffc1a9c/diff,workdir=/var/lib/containers/storage/overlay/76d93cb1256f566100ec2a7e5b5c4b84acc0bfa6a3cb4ebe0adbdb4a0ffc1a9c/work) [nfs-server]:/NFSv4_vol_cnv/ibragins-2-3.cnv-qe.rhcloud.com.pvs/pv9 on /var/tmp type nfs4 (rw,relatime,vers=4.0,rsize=65536,wsize=65536,namlen=255,hard,proto=tcp,timeo=600,retrans=2,sec=sys,clientaddr=192.168.0.38,local_lock=none,addr=10.9.96.20) # df -h Filesystem...

Dear friends: Forgot to include three more data files: http://www.websher.net/tmp/user.reg http://www.websher.net/tmp/system.reg http://www.websher.net/tmp/userdef.reg Thank you again. Benjamin I've been trying for some time to install my copy of Word97 (which I own, having purchased it directly from Microsoft with my own license number). I have tried the latest Wine 0.9.14. To do

...n")) Corrs.rand <- list() for (i in 1:length(X.mat)){ for (j in 1:100){ # This doesnot seem to wrok correctly. How do I run sample function 100 times for the same row? SNP.rand<- sample(SNP.mat[i,],56, replace = FALSE, prob = NULL) Corrs.rand[[j]]<- cor.test(SNP.rand,CNV.mat[j,],alternative =c("greater"),method= c("pearson")) # need to calculate how many times my pvalue from true p-value> random pvalue } } X dataset: #Probes X10851 X12144 X12155 X11882 X10860 X12762 X12239 X12154 1 1 1 0 0 1 0 2 0 2 0 0 0 0...

...erlay/l/QNYZ757HCAAQMJJZUZ6D452CSS,upperdir=/var/lib/containers/storage/overlay/76d93cb1256f566100ec2a7e5b5c4b84acc0bfa6a3cb4ebe0adbdb4a0ffc1a9c/diff,workdir=/var/lib/containers/storage/overlay/76d93cb1256f566100ec2a7e5b5c4b84acc0bfa6a3cb4ebe0adbdb4a0ffc1a9c/work) > > [nfs-server]:/NFSv4_vol_cnv/ibragins-2-3.cnv-qe.rhcloud.com.pvs/pv9 on /var/tmp type nfs4 (rw,relatime,vers=4.0,rsize=65536,wsize=65536,namlen=255,hard,proto=tcp,timeo=600,retrans=2,sec=sys,clientaddr=192.168.0.38,local_lock=none,addr=10.9.96.20) > > > # df -h > Filesystem...

Previously we placed large files in g#get_cachedir () (usually /var/tmp). However the problem is this ties the libguestfs appliance and the virt-v2v overlay files to the same location. When virt-v2v is run in a container, or any other situation where local storage is limited, it's helpful to be able to put the overlay files on an externally mounted PVC, which might be using NFS and shared

Hello, I made an interesting observation related to the "Clocksource tsc unstable (delta = -2999660320319 ns)" problem. In the log of ntpd I found: Oct 5 03:46:35 greenville-dom0 ntpd[4020]: kernel time sync status change 6001 Oct 5 04:03:41 greenville-dom0 ntpd[4020]: kernel time sync status change 2001 Oct 5 05:29:03 greenville-dom0 ntpd[4020]: kernel time sync status change

...es need not read data in 6425111 detaching an offline device can result in import confusion 6425740 assertion failed: new_state != old_state 6430121 3-way deadlock involving tc_lock within zfs 6433208 should not be able to offline/online a spare 6433264 crash when adding spare: nvlist_lookup_string(cnv, "path", &path) == 0 6433406 zfs_open() can leak memory on failure 6433408 namespace_reload() can leak memory on allocation failure 6433679 zpool_refresh_stats() has poor error semantics 6433680 changelist_gather() ignores libuutil errors 6433717 offline devices should not be marked p...

...ith 4+ years of significant relevant work experience (2) hold a Ph.D. in computer science, bioinformatics, or related quantitative discipline plus at least 2 years of work experience; ??? Experience working with high dimensional genomic data, such as sequencing data, gene expression, genotype, CNV, sequence and/or data from other high throughput biological technologies. Experience working with clinical data is desired. Will have basic expertise in the informatics methods used to analyze these types of data. ??? Experience managing large data volumes, as in a core facility or other high...

...: CUST 00 modprobe zaptel Rout 30 modprobe wcte11xp DES ASTERISK_VOIP_1 ztcfg TKTP TIE safe_asterisk NPID_TBL_NUM 0 ESN NO CNVT NO SAT NO RCLS INT VTRK NO DTRK YES BRIP NO DGTP PRI ISDN YES MODE PRA IFC ESS5 SBN NO PNI 00001 SRVC NNSF NCNA YES NCRD YES CHTY BCH CTYP CDP INAC YES ISAR NO CPUB OFF DAPC NO BCOT 0 DSEL VOD PTYP PRI AUTO NO...

...gt;> >> >> # This doesnot seem to wrok correctly. How do I run sample function >> 100 >> times for the same row? >> >> >> >> SNP.rand<- sample(SNP.mat[i,],56, replace = FALSE, prob = NULL) >> >> Corrs.rand[[j]]<- cor.test(SNP.rand,CNV.mat[j,],alternative >> =c("greater"),method= c("pearson")) >> >> >> >> # need to calculate how many times my pvalue from true p-value> >> random >> pvalue >> >> } >> >> } >> >> >> >> X d...

...start from scratch which really sucked. Anyway. I had problem with Win98 being able to see the server in network neighborhood, or being able to connect thought run and \\servername\share.... I saw about a user nobody so I added it. Now, in log.nmbd I get this: [2001/08/02 20:09:31, 0] lib/charcnv.c:convert_string(102) Conversion error:No more room() [2001/08/02 20:09:31, 0] lib/charcnv.c:convert_string(98) Required 16, available 15 [2001/08/02 20:09:31, 0] lib/charcnv.c:convert_string(102) Conversion error:No more room() [2001/08/02 20:09:31, 0] lib/charcnv.c:convert_string(98) Requ...

...3|.pkg:3|.tool:3|.term:3" HKEY_LOCAL_MACHINE\Software\Wow6432Node\USAF_PKI_SPO\DSET "AttachBad" ".386,.acm,.ade,.adn,.adp,.ani,.app,.arc,.arj,.asf,.asp,.aspx,.asx,.atf,.au,.avb,.avi,.b64,.bas,.bat,.bhx,.bin,.bmp,.btm,.cab,.cbl,.cbm,.cbo,.ceo,.cer,.cfm,.chm,.cla,.class,.cmd,.cnt,.cnv,.com,.cpl,.crl,.crt,.cs,.csh,.css,.ctl,.cur,.dbg,.dcr,.der,.desklink,.dhtml,.dif,.dir,.dll,.dochtml,.docm,.docmhtml,.docxml,.dothtml,.dotm,.drv,.dsm,.dun,.edt,.emf,.eot,.exe,.far,.fav,.fon,.fot,.fxp,.gif,.gms,.gzip,.hhp,.hlp,.hqx,.hta,.htc,.ht,.htm,.html,.htt,.ico,.inf,.ini,.ins,.iso,.isp,.it,.its,...