10 More Discussions You Might Find Interesting
1. UNIX for Beginners Questions & Answers
Hi,
I have to add 7 bases of specific nucleotide at the beginning and ending of all the fasta sequences of a file. For example, I have a multi fasta file namely test.fasta as given below
test.fasta
>TalAA18_Xoo_CIAT_NZ_CP033194.1:_2936369-2939570:+1... (1 Reply)
Discussion started by: dineshkumarsrk
1 Replies
2. UNIX for Beginners Questions & Answers
Hello All,
May i please know how do i ensure my split command would NOT generate incomplete output files like below, the last lines in each file is missing some columns or last line is complete.
split -b 50GB File File_
File_aa
|551|70210203|xxxxxxx|12/22/2010 20:44:58|11/01/2010... (1 Reply)
Discussion started by: Ariean
1 Replies
3. Shell Programming and Scripting
I have two directories Dir_A and Dir_A_Arc. Need help with a shell script.
The shell script needs to take the path to these two directories as parameters $1 and $2.
The script needs to check if any files exist in these directories and if either of the directories are empty then exit... (5 Replies)
Discussion started by: gaurav99
5 Replies
4. Shell Programming and Scripting
I have two files with thousands of sequences of different lengths. infile1 contains the actual sequences and infile2 the scores for each A, T, G and C in infile1. Something like this:
infile1:
>HZVJKYI01ECH5R
TTGATGTGCCAGCTGCCGTTGGTGTGCCAA
>HZVJKYI01AQWJ8
GGATATGATGATGAACTGGTTTGGCACACC... (4 Replies)
Discussion started by: Xterra
4 Replies
5. UNIX for Dummies Questions & Answers
Hi,
I would like to get the specific line from the file taking specific coloumn as reference.
Thanks and Regards (1 Reply)
Discussion started by: kkarthik_kaja
1 Replies
6. Shell Programming and Scripting
My file looks like this
But I need to remove the entry with the identifier >Reference1 along with the entire sequence. Thus, I will end up having the following file
Thanks in advance! (2 Replies)
Discussion started by: Xterra
2 Replies
7. Shell Programming and Scripting
My files look like this
And I need to cut the sequences at the last "A" found in the following 'pattern' -highlighted for easier identification, the pattern is the actual file is not highlighted.
The expected result should look like this
Thus, all the sequences would end with AGCCCTA... (2 Replies)
Discussion started by: Xterra
2 Replies
8. Shell Programming and Scripting
Hi,
I've list of files in a directory, which have date stamp value in their names.
ex:
abc_data_20071102.csv,
abc_data_20091221.csv,
abc_data_20100110.csv,
abc_data_20100222.csv,
abc_data_20080620.csv,... etc.,
I need to select and process only files, within the given date... (4 Replies)
Discussion started by: ganapati
4 Replies
9. UNIX for Dummies Questions & Answers
I have a directory of files that look like filename 001.ext, filename 002.ext, etc. I'd like to rename the files with unique random numbered names, so that the original filenames are stripped and the files are given a new, random number name. I'm not super new to UNIX, but I don't often use it for... (2 Replies)
Discussion started by: platz
2 Replies
10. Shell Programming and Scripting
I've been working on getting a script to take size, dir name and file name variables from an input file and creating the same dir structure along with the file of specific size.
An example of the input file:
size/dirname/filename
2100/JAN_06/12345ABC.TCC
2354/FEB_06/24564XYZ.NOS... (2 Replies)
Discussion started by: nxd25
2 Replies