Expand description
Parser implementation for matrices in JASPAR (raw) format.
The JASPAR database stores manually curated DNA-binding sites as count matrices.
The JASPAR files contains a FASTA-like header line for each record, followed by one line per symbol storing tab-separated counts at each position. The “raw” format simply stores 4 lines corresponding to the scores for the A, C, G and T letters:
>MA1104.2 GATA6
22320 20858 35360 5912 4535 2560 5044 76686 1507 1096 13149 18911 22172
16229 14161 13347 11831 62936 1439 1393 815 852 75930 3228 19054 17969
13432 11894 10394 7066 6459 580 615 819 456 712 1810 18153 11605
27463 32531 20343 54635 5514 74865 72392 1124 76629 1706 61257 23326 27698Structs§
Functions§
- read
- Read the records from a file in JASPAR format.