search for: sequence

Hi, I have the following sequence: in <- c(0, 0, 0, 2, 1, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 1, 0, 1, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 0, 2, 0, 2, 0, 0, 2) >From this sequence I would like to get to the following sequence: out <- c(0, 0, 0, 3, 3, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 1, 0, 1, 0, 0, 0, 0, 11, 11, 11,...

Dear all, I am trying to calculate a score for a string sequence consisting of the following four letters: ACGT. I have got a matrix giving the scores for each pair of letters. So for example the string ACCT has got the pairs: AC, CC and CT. The matrix has got the following form: names<-c("A","C","G","T"); mscore<-...

Hi folks I have two data frames. I know that the nth (let's say the 7th) row in the first data frame (sequence) is there in the second (today.sequence). When I try to check that by doing 'sequence[7,] %in% today.sequence', I get all FALSE when it should be all TRUE. I'm certain I'm making some trivial mistake. Any solutions? The code to recreate the data frames and see for yourself is: -...

...some problem with llvm-mc on a program after applying a pass: ../../../build/Release+Asserts/bin/clang -emit-llvm -c -I./testprof/ -I./src/headers/ -I../libtommath-0.42.0/ -Wall -Wsign-compare -W -Wshadow -Wno-unused-parameter -DLTC_SOURCE -O0 -DLTC_NO_ASM -DUSE_LTM -DLTM_DESC -o src/pk/asn1/der/sequence/der_encode_sequence_ex.bc src/pk/asn1/der/sequence/der_encode_sequence_ex.c ../../../build/Release+Asserts/bin/opt -reg2mem -load ../../../build/Release+Asserts/lib/LLVMobfuscation.so -flattening src/pk/asn1/der/sequence/der_encode_sequence_ex.bc -o src/pk/asn1/der/sequence/der_encode_sequence_ex.b...

may some one please help me to sort this out, i am trying to writ a R code for calculating the frequencies of the amino acids in 9 different sequences, i want the code to read the sequence from external text file, i used the following code to do so: x<-read.table("sequence.txt",header=FALSE) then i defined an array for 20 amino acids as following: AA<-c('A','C','D','E','F','G','...

...39;F','F','F','F','F','F','S','S','S','S','S','S','S','S','S','S','S','S','S','F','F','F','F','F','F')) sequence<-as.factor(c(1,1,1,1,1,1,1,1,1,1,1,1,1,1,2,2,2,2,2,2,2,2,2,2,2,2)) example<-data.frame(outcome,subject,period,treatment,sequence) The recommended SAS code equals PROC GLM DATA=example; CLASS subject period treatment sequence; MODEL outcome = treatment sequence period subject(sequence); RAND...

...10 [snipped] smb_signing_sign_pdu: sent SMB signature of [0000] 42 53 52 53 50 59 4C 20 BSRSPYL smb_signing_activate: user_session_key [0000] 21 53 41 A7 EB 74 5B 55 37 58 31 34 89 5E 55 10 !SA..t[U 7X14.^U. smb_signing_activate: NULL response_data smb_signing_md5: sequence number 1 smb_signing_check_pdu: BAD SIG: wanted SMB signature of [0000] 7D 4C 0A 44 B2 8E F0 1E }L.D.... smb_signing_check_pdu: BAD SIG: got SMB signature of [0000] 42 53 52 53 50 59 4C 20 BSRSPYL smb_signing_md5: sequence number 4294967292 s...

...lem with llvm-mc on a program after applying a pass: > > ../../../build/Release+Asserts/bin/clang -emit-llvm -c -I./testprof/ -I./src/headers/ -I../libtommath-0.42.0/ -Wall -Wsign-compare -W -Wshadow -Wno-unused-parameter -DLTC_SOURCE -O0 -DLTC_NO_ASM -DUSE_LTM -DLTM_DESC -o src/pk/asn1/der/sequence/der_encode_sequence_ex.bc src/pk/asn1/der/sequence/der_encode_sequence_ex.c > ../../../build/Release+Asserts/bin/opt -reg2mem -load ../../../build/Release+Asserts/lib/LLVMobfuscation.so -flattening src/pk/asn1/der/sequence/der_encode_sequence_ex.bc -o src/pk/asn1/der/sequence/der_encode_sequence...

On Thu, 9 Feb 2017, Vitaly Kuznetsov wrote: > +#ifdef CONFIG_HYPERV_TSCPAGE > +static notrace u64 vread_hvclock(int *mode) > +{ > + const struct ms_hyperv_tsc_page *tsc_pg = > + (const struct ms_hyperv_tsc_page *)&hvclock_page; > + u64 sequence, scale, offset, current_tick, cur_tsc; > + > + while (1) { > + sequence = READ_ONCE(tsc_pg->tsc_sequence); > + if (!sequence) > + break; > + > + scale = READ_ONCE(tsc_pg->tsc_scale); > + offset = READ_ONCE(tsc_pg->tsc_offset); > + rdtscll(cur_tsc); > +...

On Thu, 9 Feb 2017, Vitaly Kuznetsov wrote: > +#ifdef CONFIG_HYPERV_TSCPAGE > +static notrace u64 vread_hvclock(int *mode) > +{ > + const struct ms_hyperv_tsc_page *tsc_pg = > + (const struct ms_hyperv_tsc_page *)&hvclock_page; > + u64 sequence, scale, offset, current_tick, cur_tsc; > + > + while (1) { > + sequence = READ_ONCE(tsc_pg->tsc_sequence); > + if (!sequence) > + break; > + > + scale = READ_ONCE(tsc_pg->tsc_scale); > + offset = READ_ONCE(tsc_pg->tsc_offset); > + rdtscll(cur_tsc); > +...

Hi, I was wondering the what would be the (most efficient) way to generate a sequence of sequences, i mean: if I have 1,2 and 3. I'd like to generate a sequence of length N*3 (N ~ 1,000,000 or more) Where random permutations of the sequence 1,2,3 follow each other. i.e 1,2,3,1,3,2,3,2,1 /!\ The thing is that there should never be twice the same number of in the same sub-se...

I have independent event sequences for example as follows : Independent event sequence 1 : A , B , C , D Independent event sequence 2 : A, C , B Independent event sequence 3 :D, A, B, X,Y, Z Independent event sequence 4 :C,A,A,B Independent event sequence 5 :B,A,D I want to able to find that most common sequence patters...

Dear all, please could you suggest any R functions or packages (or external programs), that a. take as input a large number (> 10 000) of short 20-30 nt sequences, and do sequence assembly, to reconstruct larger (extended) 30-50 sequences ? b. take as input a larger number of sequences (100 000 - 1 mil) and cluster these sequences in distinct classes based on the sequence similarity ? thanks a lot, bogdan [[alternative HTML version deleted]]

...Kuznetsov wrote: >> > +#ifdef CONFIG_HYPERV_TSCPAGE >> > +static notrace u64 vread_hvclock(int *mode) >> > +{ >> > + const struct ms_hyperv_tsc_page *tsc_pg = >> > + (const struct ms_hyperv_tsc_page *)&hvclock_page; >> > + u64 sequence, scale, offset, current_tick, cur_tsc; >> > + >> > + while (1) { >> > + sequence = READ_ONCE(tsc_pg->tsc_sequence); >> > + if (!sequence) >> > + break; >> > + >> > + scale = READ_ONCE...

...Kuznetsov wrote: >> > +#ifdef CONFIG_HYPERV_TSCPAGE >> > +static notrace u64 vread_hvclock(int *mode) >> > +{ >> > + const struct ms_hyperv_tsc_page *tsc_pg = >> > + (const struct ms_hyperv_tsc_page *)&hvclock_page; >> > + u64 sequence, scale, offset, current_tick, cur_tsc; >> > + >> > + while (1) { >> > + sequence = READ_ONCE(tsc_pg->tsc_sequence); >> > + if (!sequence) >> > + break; >> > + >> > + scale = READ_ONCE...

In package fOptions, there are functions that generate Halton sequences. The van der Corput sequence for base 2 is a particular case of the Halton sequence generated by: n <- 8 # anything here... x <- runif.halton(n, 1) In fact, x <- runif.halton(n, dim) will generate the van der Corput sequences for the base b as the i-th prime number in x[,i]. (in othe...

...gt; > > > > Is there a reason for writing "I = ++I" instead of "++I" ? > > > > I don't see how it's a bug because functionality isn't impacted by > > this. It's simply a redundant assignment. > > It is a bug as it violates the sequence point rule. One memory location > shall not be modified twice. Not in C++11, and (probably) not in C11. The side-effect of pre-increment is sequenced before its value computation, and its value computation is sequenced before the assignment. (C++ doesn't have sequence points any more, and...

...pipe_dir(297) [11340]: request location of privileged pipe [2005/04/14 10:11:15, 3] nsswitch/winbindd_user.c:winbindd_getpwnam(126) [11340]: getpwnam domain1\ssmith [2005/04/14 10:11:15, 3] lib/charcnv.c:convert_string_allocate(576) ) convert_string_allocate: Conversion error: Illegal multibyte sequence(µ [2005/04/14 10:11:15, 3] nsswitch/winbindd_group.c:winbindd_getgroups(1003) [11340]: getgroups DOMAIN1\ssmith [2005/04/14 10:11:15, 0] sam/idmap_rid.c:rid_idmap_get_id_from_sid(461) rid_idmap_get_id_from_sid: no suitable range available for sid: S-1-5-21-1844237615-1644491937-725345543-513...

Dear RRRRRrrrrrrrrlist! I?ve got two lists which contain sets of DNA-sequences. They look something like this: List of 33 $ Cunonia_atrorubens : chr [1:247] "t" "t" "n" "t" ... $ Cunonia_balansae : chr [1:254] "t" "c" "c" "c" ... $ Cunonia_capensis...

Dear R-users, I'd like to create filenames in a mask "file000.dat" numbered from 1 to e.g. 123. The last problem I'm dealing with is creating the sequence of numbers with equal length, i.e. 001, 002,.... 023, 024,.... 122, 123. The closest I got is by a repetition: Sequence <- c(1:123) for(i in c(1:length(Sequence))) { print( paste(rep("0", max(nchar(as.character(Sequence)))-nchar(as.character(Sequence[i]))), as.character(Seque...