<div dir="ltr"><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small"><br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small"><a href="http://www.ensembl.org/Homo_sapiens/Variation/Explore?db=core;r=1:31789941-31789941;v=rs1286699429;vdb=variation;vf=502464213">http://www.ensembl.org/Homo_sapiens/Variation/Explore?db=core;r=1:31789941-31789941;v=rs1286699429;vdb=variation;vf=502464213</a><br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small">On that page is a gerp score <span class="gmail-text_separator"></span><span><span class="gmail-_ht gmail-ht"><span class="gmail-ht gmail-_ht">GERP</span></span>: 1.27. Where can I download that GERP score?</span><br><br>I found this: <a href="https://www.ensembl.org/Help/Faq?id=221">https://www.ensembl.org/Help/Faq?id=221</a><br><br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small">Which says to get the gerp scores from an EMF file. I am unfamiliar with this file type. (apparently emf is also a image file type, so google didn't help!)<br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small"><br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small"><a href="ftp://ftp.ensembl.org/pub/current_emf/ensembl-compara/multiple_alignments/103_mammals.epo_low_coverage/103_mammals.epo_low_coverage.1_10.emf.gz">ftp://ftp.ensembl.org/pub/current_emf/ensembl-compara/multiple_alignments/103_mammals.epo_low_coverage/103_mammals.epo_low_coverage.1_10.emf.gz</a></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small"><br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small">The EMF file looks like this:<br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small"><br>##FORMAT (compara)<br>##DATE Fri Feb 21 15:26:12 2020<br>##RELEASE 100<br># Alignments: 103 eutherian mammals EPO-Low-Coverage<br># Region: Homo sapiens chromosome:GRCh38:10:1:133797422:1<br># File 1<br><br>SCORE 103 eutherian mammals GERP Conservation Scores<br>ID 18230001887772<br>DATA<br>aAAaaaaaaAaAAGGGGA-AAA---A--AAA-AA---CC-A -1.03 <-- which position is this score for? <br>cCCccccccCcCCCCCCC-CCC---T--CCC-TC---TT-C -1.97<br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small"><br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small">1. is this file the right place to get the GERP scores listed on the website?<br>2. Does each line represent a position? So "-1.03" would be the score for position chr10:1? Or is there a way to find out which positions are being described? Or am I reading this file wrong? Because position 1 doesn't make a lot of sense but I don't see another number.<br><br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small">Thank you!<br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small">Julie<br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small"><br>=====<br><br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small">I also tried the Perl API and this file but was not successful:<span></span><br></div><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small"><span></span><div class="gmail_default" style="font-family:trebuchet ms,sans-serif;font-size:small"><span><br><a href="ftp://ftp.ensembl.org/pub/current_compara/conservation_scores/103_mammals.gerp_conservation_score/">ftp://ftp.ensembl.org/pub/current_compara/conservation_scores/103_mammals.gerp_conservation_score/</a><a class="gmail-file" href="ftp://ftp.ensembl.org/pub/current_compara/conservation_scores/103_mammals.gerp_conservation_score/gerp_conservation_scores.homo_sapiens.GRCh38.bw">gerp_conservation_scores.homo_sapiens.GRCh38.bw</a></span></div></div></div>