14b689e5b1445efaa903e8715103cace098b3d7a lrnassar Wed Jul 27 14:09:16 2022 -0700 Feedback from CR refs #29797 diff --git src/hg/makeDb/trackDb/human/jaspar.html src/hg/makeDb/trackDb/human/jaspar.html index 0533f24..94fd5e8 100644 --- src/hg/makeDb/trackDb/human/jaspar.html +++ src/hg/makeDb/trackDb/human/jaspar.html @@ -114,32 +114,32 @@ consistent between the two methods (TFBS Perl module and FIMO) were removed. The remaining TFBS predictions were colored according to their FIMO p-value to allow for comparison of prediction confidence between different profiles.
Please refer to the JASPAR 2022, 2020, and 2018 publications for more details (citation below).
JASPAR Transcription Factor Binding data includes billions of items. Limited regions can be explored interactively with the Table Browser and cross-referenced with Data Integrator, although positional -queries that are too big can lead to timing out, resulting in a black page -or truncated output. In this case you may try reducing the chromosomal query to +queries that are too big can lead to timing out. This results in a black page +or truncated output. In this case, you may try reducing the chromosomal query to a smaller window.
For programmatic access, the track can be accessed using the Genome Browser's REST API. JASPAR annotations can be downloaded from the Genome Browser's download server as a bigBed file. This compressed binary format can be remotely queried through command line utilities. Please note that some of the download files can be quite large.
The utilities for working with bigBed-formatted binary files can be downloaded here. Run a utility with no arguments to see a brief description of the utility and its options.