I am new here and already a question to ask, I just recently started some bioinformatic work for my PhD so I am slowly learning
Anyway, here is my problem, I have two text files, one contains the complete data file with 43000 genes and their read counts for all my samples (actually 13 columns in total):
And the other text file is a list of the 21000 genes which have high expression value that I want to extract
Okay so all I want to do is extract the genes in file 2 from the file 1 so I get expression value of only these 21000 genes
I sorted the files and tried join
But the outfile is empty
I tried comm and diff but nothing seems to work
Any ideas why it does not work and hints for me please?
Thanks again everybody, have a nice sunday
Last edited by Scrutinizer; 04-28-2013 at 01:37 PM..
Reason: code tags
Hi,
I have two text files that I would like to merge/join. I would like to join them if the first columns of both text files match and the second column of the first text file matches the third column of the second text file.
Example input:
First file:
1334 10 0 0 1 5.2
1334 12 0 0 1 4.5... (4 Replies)
I have two text files. One has two columns and looks like below:
rs# otherallele_freq
rs10399749 0
rs4030303 0
rs4030300 0
rs940550 1.000
rs13328714 0
rs11490937 0
rs6683466 0
rs12025928 1.000
rs6650104 0
rs11240781 0... (5 Replies)
So I have two text files. The first one looks like this:
refsnp_id chr_name chrom_start
1 rs1000000 12 126890980
2 rs10000010 4 21618674
3 rs10000012 4 1357325
4 rs10000013 4 37225069
5 rs1000002 3 183635768
And the second one looks like this:
AUC rs1000000 0.03 0.1240
AUC ... (4 Replies)
Hi All,
I have two text files containing space delimited columns. The first file contains 9 columns and the second one contain 3 columns. I want to copy the 3 coloumns from the 2nd file and paste them in 1st file after 9 coloumns.
Ex.
File1.txt contains 9 coloumns
C1 C2 C3 C4 C5 C6 C7 C8 C9... (6 Replies)
Hello,
I am trying to merge data from two text files. One file (File1) contains a listing of data which includes the trial number in Column 5, while the other text file (File2) contains what category the trial belongs to.
Here is a snippet of what File1 looks like.
1 Arrow_ST 9.738 0.905... (2 Replies)
Hi good day
Is there a shell script I can use to join multiple text files in a folder and put the name(excluding the extension) of the text file before it's contents and put EOF at the end of each portion.
so for example, say I have
file1.dat, file2.dat, file3.dat
i'll get
file1
{text... (7 Replies)
Hi There,
I am new to UNIX. requirement is merging all text files from one folder in the order which they have received.
EX: under /Test folder files received in certain intervals.
abc.txt @ 1:00 AM
123.txt @ 2:00 AM
xyz.txt @ 4:00 AM
.
.
.
456.txt @ 10:00 PM
so need to develop a... (3 Replies)
Hi Experts,
I need your timely help. I have a problem with merging two files. Here my situation :
Here I have to compare first three fields from FILE1 with FILE2. If they are equal, I have to append the remaining values from FILE2 with FILE1 to create the output.
FILE1:
Class ... (3 Replies)
hi
i need to select a few columns of two txt files and write it to a new file. there is one common field for both of these files.
plz help me in this
thanks in advance (4 Replies)