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Bedtools Commands
12 bedtools entries
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bedtools Operations
Bedtools Command: Closest Features With Distance
bedtools closest -a <path/to/file1.bed> -b <path/to/file2.bed> -d bedtools Operations
Bedtools Command: Convert Bam To Bed
bedtools bamtobed -i <path/to/file.bam> > <path/to/file.bed> bedtools Operations
Bedtools Command: Find Closest Features
bedtools closest -a <path/to/file1.bed> -b <path/to/file2.bed> -d bedtools Operations
Bedtools Command: Group By Columns And Sum
bedtools groupby -i <path/to/file> -c 1-3,5 -g 6 -o sum bedtools Operations
Bedtools Command: Group File Columns Sum
bedtools groupby -i <path/to/file> -c 1-3,5 -g 6 -o sum bedtools Operations
Bedtools Command: Group File Sum Operations
bedtools groupby -i <path/to/file> -c 1-3,5 -g 6 -o sum bedtools Operations
Bedtools Command: Intersect Files Left Outer Join
bedtools intersect -a <path/to/file1> -b <path/to/file2> -loj > <path/to/output_file> bedtools Operations
Bedtools Command: Intersect Files Strand
bedtools intersect -a <path/to/file_A> -b <path/to/file_B1 path/to/file_B2 ...> -s > <path/to/output_file> bedtools Operations
Bedtools Command: Intersect Files Strand Save
bedtools intersect -a <path/to/file_A> -b <path/to/file_B1 path/to/file_B2 ...> -s > <path/to/output_file> bedtools Operations
Bedtools Command: Intersect Files With Strand
bedtools intersect -a <path/to/file_A> -b <path/to/file_B1 path/to/file_B2 ...> -s > <path/to/output_file> bedtools Operations
Bedtools Command: Intersect Left Outer Join
bedtools intersect -a <path/to/file1> -b <path/to/file2> -loj > <path/to/output_file> bedtools Operations
Bedtools Command: Intersect Pre Sorted Files
bedtools intersect -a <path/to/file1> -b <path/to/file2> -sorted > <path/to/output_file>