10 More Discussions You Might Find Interesting
1. UNIX for Beginners Questions & Answers
I have the following Snps data
CHROM POS ID
chr7 78599583 rs987435
chr15 33395779 rs987436
chr1 189807684 rs987437
chr20 33907909 rs987438
chr12 75664046 rs987439
and the following gene data
genename name chrom strand txstart txend... (8 Replies)
Discussion started by: marwah
8 Replies
2. Shell Programming and Scripting
I am trying to modify the awk below to include the gene name ($5) for each target and can not seem to do so. Also, I'm not sure the calculation is right (average of all targets that are the same is $4 using the values in $7)? Thank you :).
awk '{if((NR>1)&&($4!=last)){printf("%s\t%f\t%s\n",... (1 Reply)
Discussion started by: cmccabe
1 Replies
3. Shell Programming and Scripting
Hi,
May i ask if someone share some command for extracting a string between 2 ref string in a txt file
My objective: i had a file with multiple lines and wants only to extract the string "watch?v=IbkAXOmEHpY" or "watch?v=<11 random character>", when i used "grep 'watch?=*' i got a results per... (4 Replies)
Discussion started by: jao_madn
4 Replies
4. UNIX for Dummies Questions & Answers
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)
Discussion started by: Ann Mc Cartney
1 Replies
5. Shell Programming and Scripting
I had two files 1.txt 2.txt. I want a 3rd file(o/p) 3.txt like below based on the common elements from the first coulmns of 1.txt and 2.txt.
1.txt
11
12
13
14
15
16
17
18
19
20
21
2.txt (6 Replies)
Discussion started by: p_sai_ias
6 Replies
6. UNIX for Advanced & Expert Users
Hi, all:
My writed network device driver works fine when the transmitted file is under several MegaBytes, but above this size, especially dozens of or hundreds of MegaBytes, the kernel panic ocurres! I check the kern.log and find this error :
522 Nov 14 19:35:32 liklstar-server kerneNov 14... (2 Replies)
Discussion started by: liklstar
2 Replies
7. Shell Programming and Scripting
Hi, my problem is that I have two files. File no. 1 is a gff text file (say gi1) that has gene information like :
********************
gene 39389788..39395643
/gene="RPSA"
/note="Derived by automated computational analysis using
... (2 Replies)
Discussion started by: reena2305
2 Replies
8. Shell Programming and Scripting
FILE1
abc:xxx:abc:123:wer:AAA:12
csf:xxx:123:aeg:sar:BBB:13
asq:yer:321:wsa:qqq:CCC:14
FILE2
AAA:12:SET1:R1
AAA:12:SSS1:RR1
AAA:11:SET4:R3
BBB:13:SET2:R2
OUTPUT
abc:xxx:abc:123:wer:AAA:12:SET1:R1:SSS1:RR1
csf:xxx:123:aeg:sar:BBB:13:SET2:R2::... (4 Replies)
Discussion started by: greycells
4 Replies
9. Shell Programming and Scripting
I had two files 1.txt 2.txt. I want a 3rd file(o/p) 3.txt like below (using awk)
1.txt
11 a1
12 a2
13 a3
14 a4
15 a5
16 a6
17 a7
18 a8
19 a9
20 a10
2.txt
14 b1
15 b2
16 b3 (8 Replies)
Discussion started by: p_sai_ias
8 Replies
10. Shell Programming and Scripting
Hi!
1. I have a parameter file containing path to log files. For this example both paths are the same, one is stated directly and the second using env variables.
/oracle/admin/orcl/bdump/:atlas:trc:N
${ORACLE_BASE}/admin/${ORACLE_SID}/bdump/:${ORACLE_SID}:trc:N
2. I try to parse the path... (1 Reply)
Discussion started by: lojzev
1 Replies