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Forum: Bioinformatics 05-03-2019, 11:28 AM
Replies: 0
Views: 497
Posted By archana87
How to find internal stem-loop structure in a fasta file?

Hi,

I have large data sets. In one file having more than 3000 fasta sequences.
I want to check all the sequences. If any of the sequences forming internal stem-loop structure I want to exclude...
Forum: Bioinformatics 04-29-2019, 02:08 PM
Replies: 8
Views: 975
Posted By archana87
Hi, In spite of giving the path in for loop,...

Hi,
In spite of giving the path in for loop, you can first add a prefix of the serial number in all your fastq files and then try like this

for i in $(1 6500);
do
bowtie2 -x PC_805 --threads...
Forum: General 04-23-2019, 01:24 PM
Replies: 1
Views: 1,586
Posted By archana87
How to convert python script into perl

Hi,

I got one project on which PI is asking for the script in perl whereas I completed the script in python. Is there any way to convert python script into perl?


Any help or suggestion is...
Forum: General 04-23-2019, 01:18 PM
Replies: 54
Sticky: NGS Blogs
Views: 72,836
Posted By archana87
Thanks. It would be a great help.

Thanks.

It would be a great help.
Forum: Bioinformatics 04-23-2019, 01:07 PM
Replies: 1
Views: 431
Posted By archana87
Got it

Yahoo, I figure it out..... Anyway, any other way if we can do it then also fine...

My Answer is sort -k1,1 -k3,3nr -k2,2n infile.txt | sort -u -k1,2 --merge
Forum: Bioinformatics 04-23-2019, 10:58 AM
Replies: 1
Views: 431
Posted By archana87
Extract the high value column from a big file

Hi,

As I am new in this field. I am trying to get the best score with larger start length from below file. Here, the file header is like Chromosome location, score, and start length. I want top...
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