Search Results

Hello Don, the ID value is always the first part of the list separated by ;, it doesnt appear anywhere else

Hello all,

Please help modify my file. I want to pick up the ID value when the 3rd column is either gene or protein_coding_gene and place the ID in the gene_id attribute corresponding rows which...

Yes, each line in the input is independent ..and the awk script does a series of greps from another file and writes to the output..

Hi Guys,

I want to break down one of my input files into say 25 parts , run the same script in parallel and then merge the output into a single script.
I have access to computing resources that...

My data is jumbled up in the following way. I want to replace only the first two occurrences of space sets (may be a single space also) in every line with a single tab, please help. I want to be able...

Hi Don, thank you for your invaluable insights, a few more questions for you please.

I have manually edited blastx_consol_tab.txt
textpad, is it possible to remove unwanted carriage returns...

Hi Don, I`m using tab as delimiter for the script. I have pasted the script below.
It works fine with smaller samples. Also I`m transferring file through Winscp software drag and drop.
more...

Hi all, I am running an awk script to generate a file with several columns, in the output the contents of a single line gets continued to a second line . Why is this happening and how can it be...

please fix your request so that the requirements are clear.

thank you, this works great !

Hi Yoda,
can be directory names generalized ? That was just an example, but the actual directory names do not have a pattern to use. Also This is to be done for all directories in the folder .
...

Hi all,

please help, I have several folders in a directory that have the same set of files (content different but names same). I want to use the paste command to merge the 5th column of all files...

RudiC, I did test with smaller files, it works fine,,,

Ahamed, the second code has started producing appropriate output,,,the first code still hasn't..
Thank you again, i will wait it out..it...

ahamed, the code has been running for 6 hrs without any output so far, file1 is 29 MB and file2 is 8 GB..is there a way to speed up things? Also I think searching the same string just once will save...

awk '$13!~KOG && FNR == NR { OFS="\t"; f[++j] = $0; next } { for(i = 1; i <= j; i++) if(index(f[i], $2)) { $15 = f[i] ; break } print}' file2_samp.txt file1_samp.txt

This is what I have tried,...

Hello,

I want to search a string/substring from the second column in file in another file and append the first found record in second file to the end of the record in the first file. Both files...

Hi all,

I have a list which I want to search in another file.
I can do that using
grep -f

but the search is failing due to special characters, how do I solve this?

One row in that list...

thank you ! everything works great !

Hi Guys,

I`m having a strange problem with my data set. Whenever there is a transition to another value is col1, the corresponding 3rd col goes to the next line. This is a huge file, so need to...

Thank you, this looks perfect

thank you, this looks perfect,

The last column is the name corresponding with col2 of input 1 which is at the last header at the top starting with [some alphabets] some description.

So for At1g31340 it is [OR] Ubiquitin...

Hi All,

I want to lookup name for an id in col2 input from another file and add the name to each line.

Input 1

comp100001_c0_seq1 At1g31340 30.40 569 384 11 3 ...