Sorry for the confusion. Here are the input files and required output
This is the input file where it contains unique sequences. i have more than million such unique sequences.
Query:
Code:
>tag1
TCGGA
>tag2
TCTCA
>tag3
TCTCGC
These are multiple files. for example i am showing with 3 files. i have more than 20 such files. each file contains more than 10 million sequences each
File1:
Please advice how can we search for a string say (abc) in multiple files and to get total occurrence of that searched string. (Need number of records that exits in period of time).
File look like this (read as filename.yyyymmdd)
a.20100101
b.20100108
c.20100115
d.20100122
e.20100129... (2 Replies)
Hi.. I have a seperate chromosome sequences and i wanted to parse some regions of chromosome based on start site and end site.. how can i achieve this?
For Example Chr 1 is in following format
I need regions from 2 - 10 should give me AATTCCAAA
and in a similar way 15- 25 should give... (8 Replies)
Hey,
I've been trying to break a massive fasta formatted file into files containing each gene separately. Could anyone help me? I've tried to use the following code but i've recieved errors every time:
for i in *.rtf.out
do
awk '/^>/{f=++d".fasta"} {print > $i.out}' $i
done (1 Reply)
Hi
I have an alignment file (.fasta) with ~80 sequences. They look like this-
>JV101.contig00066(+):25302-42404|sequence_index=0|block_index=4|species=JV101|JV101_4_0
GAGGTTAATTATCGATAACGTTTAATTAAAGTGTTTAGGTGTCATAATTT
TAAATGACGATTTCTCATTACCATACACCTAAATTATCATCAATCTGAAT... (2 Replies)
I have fasta files with multiple sequences in each. I need to change the sequence name headers from:
>accD:_59176-60699
ATGGAAAAGTGGAGGATTTATTCGTTTCAGAAGGAGTTCGAACGCA
>atpA_(reverse_strand):_showing_revcomp_of_10525-12048
ATGGTAACCATTCAAGCCGACGAAATTAGTAATCTTATCCGGGAAC... (2 Replies)
Hi,
I want to match the sequence id (sub-string of line starting with '>' and extract the information upto next '>' line ). Please help .
input
> fefrwefrwef X900
AGAGGGAATTGG
AGGGGCCTGGAG
GGTTCTCTTC
> fefrwefrwef X932
AGAGGGAATTGG
AGGAGGTGGAG
GGTTCTCTTC
> fefrwefrwef X937... (2 Replies)
Hi,
I want to search only duplicate sequence number in file e.g
4757610
4757610
should display only duplicate sequence number in file.
file contain is:
4757610 6zE:EXPNL ORDER_PRIORITY='30600022004757610' ORDER_IDENTIFIER='4257771056' MM_ASK_VOLUME='273' MM_ASK_PRICE='1033.0000' m='GBX'... (5 Replies)
Hi,
I have a fasta file with multiple sequences. How can i get only unique sequences from the file.
For example
my_file.fasta
>seq1
TCTCAAAGAAAGCTGTGCTGCATACTGTACAAAACTTTGTCTGGAGAGATGGAGAATCTCATTGACTTTACAGGTGTGGACGGTCTTCAGAGATGGCTCAAGCTAACATTCCCTGACACACCTATAGGGAAAGAGCTAAC
>seq2... (3 Replies)
I could calculate the length of entire fasta sequences by following command,
awk '/^>/{if (l!="") print l; print; l=0; next}{l+=length($0)}END{print l}' unique.fasta
But, I need to calculate the length of a particular fasta sequence specified/listed in another txt file. The results to to be... (14 Replies)
I have to mine the following sequence pattern from a large fasta file namely gene.fasta (contains multiple fasta sequences) along with the flanking sequences of 5 bases at starting position and ending position,
AAGCZ-N16-AAGCZ
Z represents A, C or G (Except T)
N16 represents any of the four... (3 Replies)
Discussion started by: dineshkumarsrk
3 Replies
LEARN ABOUT SUSE
irsend
IRSEND(1) FSF IRSEND(1)NAME
irsend - basic LIRC program to send infra-red commands
SYNOPSIS
irsend [options] DIRECTIVE REMOTE CODE [CODE...]
DESCRIPTION
Asks the lircd daemon to send one or more CIR (Consumer Infra-Red) commands. This is intended for remote control of electronic devices such
as TV boxes, HiFi sets, etc.
DIRECTIVE can be:
SEND_ONCE - send CODE [CODE ...] once
SEND_START - start repeating CODE
SEND_STOP - stop repeating CODE
LIST - list configured remote items
SET_TRANSMITTERS - set transmitters NUM [NUM ...]
SIMULATE - simulate IR event
REMOTE is the name of a remote, as described in the lircd configuration file.
CODE is the name of a remote control key of REMOTE, as it appears in the lircd configuration file.
NUM is the transmitter number of the hardware device.
For the LIST DIRECTIVE, REMOTE and/or CODE can be empty:
LIST "" "" - list all configured remote names
LIST REMOTE "" - list all codes of REMOTE
LIST REMOTE CODE - list only CODE of REMOTE
The SIMULATE command only works if it has been explicitly enabled in lircd.
-h --help
display usage summary
-v --version
display version
-d --device
use given lircd socket [/var/run/lirc/lircd]
-a --address=host[:port]
connect to lircd at this address
-# --count=n
send command n times
EXAMPLES
irsend LIST DenonTuner ""
irsend SEND_ONCE DenonTuner PROG-SCAN
irsend SEND_ONCE OnkyoAmpli VOL-UP VOL-UP VOL-UP VOL-UP
irsend SEND_START OnkyoAmpli VOL-DOWN ; sleep 3
irsend SEND_STOP OnkyoAmpli VOL-DOWN
irsend SET_TRANSMITTERS 1
irsend SET_TRANSMITTERS 1 3 4
irsend SIMULATE "0000000000000476 00 OK TECHNISAT_ST3004S"
FILES
/etc/lirc/lircd.conf
Default lircd configuration file. It should contain all the remotes, their infra-red codes and the corresponding timing and wave-
form details.
DIAGNOSTICS
If lircd is not running (or /var/run/lirc/lircd lacks write permissions) irsend aborts with the following diagnostics:
"irsend: could not connect to socket"
"irsend: Connection refused" (or "Permission denied").
SEE ALSO
The documentation for lirc is maintained as html pages. They are located under html/ in the documentation directory.
lircd(8), mode2(1), smode2(1), xmode2(1), irrecord(1), irw(1), http://www.lirc.org.
irsend 0.8.7pre1 May 2010 IRSEND(1)
03-10-2014
