Hello folks,
I happen to have a small problem which seemed to be trivial at first, but keeps me busy for a while now already. Maybe you...
18 results in 0.0029 seconds.
-
Splitting a FastQ file into two
-
Convert vcf to bed based on PS field
Hello,
I want to convert the VCF file with phase information into a phase block bed format.
So if this is the file:
#CHROM... -
SAM header, difference between using sam tools or awk to filter ?
I have filtered SAM files to get only the aligned reads with samtools view -F4.
my output is a file in SAM format, the header is lost, but I can... -
Select entries in Trinotate annot. report that match separate list
Hi,
I have a Trinotate annotation report saved as Excel CSV. The annotation report has 15 columns for every entry. There are ~700,000... -
awk to use value to change font and sort
I can not figure out if the calculated value in $2 is less than or equal to 100 then in that line the font is changed to red, then the entire file is... -
awk to calculate by target and include gene name
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... -
Converting tab-delimited text file into HTML/PDF/latex/knitr report.
I have a bash script that takes ABI file as input and uses ANNOVAR for annotating the variants. A tab-delimited text file is produced that contains the... -
Using AWK to perform VLOOKUP-like command
Hi all,
I have a set of files with genotypic data, each divided into 3 columns of data, including: MARKER, ID, GENOTYPE.
I...Last edited by sagi.polani; 02-19-2015, 12:25 AM. -
Script to extract contigs based on sequence size
Do you anyone have script or you know any script available already to read the nucleotide fasta file and extract the contigs based on sequence size (eg.300... -
Extract mapped information from bam files
Hello,
I have 3 bam files that i wanted to compare against each other. For example i have reference file with 10,000 sequences. I have... -
filtering - find-if commands
Hi, Could someone please tell me how to do this simple search. I don't know much programming and this is beyond me. But I think it should be a simple... -
awk/bash/perl/sed one-liners explained
I landed on this website by accident. After a little browsing, I just felt like I had to share it here. Any good bioinformatician should be at least somewhat... -
Parsing file to retrieve specific pattern
I have a txt file with several rows. Each row contains several words separated by space. I want to print the values which have pattern like amenXXXXXXX... -
print first occurence of a line
Hi all,
I extracted ORFs from a initial fasta file and now I want to get the longest ORF for each transcript.
After having... -
Text file editing_perl-GFF
I would like to get the help of computer experts, in editing my GFF file
...Code:##dsfsd2 ##sdf-sdf sasg 5.6.3 gi34_ex
