Usage: yame pack [options] <in.txt> <out.cx>
The input text file must match the dimension and order of the reference CpG bed file.
Options:
-f [char] Format specification (choose one character or number):
(b) Binary data. Format default to 0 or 1 depending on size:
0 - 1 byte for 8 binary CpGs
1 - Value (1 byte) + Run-Length Encoding (RLE) (2 bytes)
(s) State data. Format default to 2:
2 - State text + Index RLE (Best for chromatin states).
Use format 0 for sequence context.
(m) Sequencing MU data. Format default to 3:
3 - MU RLE + Ladder byte (Input: 2-column text, M and U).
(d) Differential meth data. Format default to 6:
5 - 2-bits + NA-RLE (Input: only 0, 1, 2 values).
6 - 2-bits boolean for S (set) and U (universe).
(Input: 2-column text, S and U).
(n) Fraction data. Format default to 4:
4 - Fraction / NA-RLE (32 bytes).
(r) Reference coordinates. Format default to 7:
7 - Compressed BED format for CGs.
-u [int] Number of bytes per unit data when inflated (1-8).
Lower values are more memory efficient but may be lossier.
0 - Inferred from data.
-v Verbose mode
-h Display this help message