Incorrect Column Description in .bed File Documentation

[SABiagini]

Hi,

I’ve noticed an error in the documentation regarding the .bed file format.

Currently, the instructions state:

“Provide position and position+1 in the 2nd and 3rd columns.”

However, this should actually be:

“Provide position-1 in the 2nd column and position in the 3rd column.”

To clarify, the .bed file format uses a zero-based indexing system for the start position. This means the start position (2nd column) is zero-indexed, or position-1, while the end position (3rd column) is one-indexed, simply position.

For example, if your first position is 839494 on chr1, according to the current description, you would write:

1 839494 839495 G T

However, since the .bed format is zero-based, the correct format should be:

1 839493 839494 G T

This adjustment ensures that the data is correctly aligned with the zero-based format, where the start position is zero-indexed.

Best,

S.