input2.bed (This file is a binary file not readable by the terminal).
But, there is a program in our field that executes by taking this
Code:
input2.bed
Code:
program input_file -chrom -start -end output_file
Now, my task is this
1. Read input1.bed's each record
2. Feed it in the following way to the program, so that the program executes in a continuous loop for each record in input1.bed this way and generate the output files with each input1.bed's record as their name
Code:
program input2.bed -chrom=chr1 -start=100 -end=200 chr1_100_200_op.bed
program input2.bed -chrom=chr1 -start=120 -end=300 chr1_120_300_op.bed
program input2.bed -chrom=chr1 -start=145 -end=226 chr1_145_226_op.bed
program input2.bed -chrom=chr2 -start=567 -end=600 chr2_567_600_op.bed
3. For example, I consider the first output file -
4. Now, ignore the first three columns of the above output file, but consider the maximum fourth column value, which is 111.11 and replace the entire contents of my chr1_100_200_op.bed with just the file name, which will be this one
Code:
cat chr1_100_200_op.bed
chr1_100_200 111.11
This is it. Please ask me as many questions as you have for a better solution. Thanks a ton for all your time.
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