2d342c85706fa108decc142314c97c0a0564280b angie Thu Mar 23 20:10:22 2023 -0700 Fixing a few typos I spotted in code review. refs #30826 diff --git src/hg/makeDb/trackDb/human/hg38/problematic.html src/hg/makeDb/trackDb/human/hg38/problematic.html index 1e5f015..d115f39 100644 --- src/hg/makeDb/trackDb/human/hg38/problematic.html +++ src/hg/makeDb/trackDb/human/hg38/problematic.html @@ -2,31 +2,31 @@ <p> This container track helps call out sections of the genome that often cause problems or confusion when working with the genome. There are two subtracks for now, Anshul Kundaje's <a href="https://github.com/Boyle-Lab/Blacklist/blob/master/lists/hg19-blacklist-README.pdf" target=_blank>ENCODE Blacklist</a> and the UCSC Unusual Regions track. <p>The hg19 genome has a track with the same name, but with many more subtracks, as the GeT-RM and Genome-in-a-Bottle artefact variants do not exist yet for hg38, to our knowledge. If you are missing a track here that you know from hg19 and have an idea how to add it hg38, do not hesitate to contact us.</p> <p> The <b>UCSC Unusual Regions</b> subtrack contains annotations collected at UCSC, -UCSC, put together from other tracks, our experiences and support email list +put together from other tracks, our experiences and support email list requests over the years.</p> For example, it contains the most well-known gene clusters (IGH, IGL, PAR1/2, TCRA, TCRB, etc) and annotations for the GRC <a href="../cgi-bin/hgTracks?db=hg19&chromInfoPage=">fixed sequences, alternate haplotypes, unplaced contigs, pseudo-autosomal regions, and mitochondria</a>. These loci can yield alignments with low-quality mapping scores and discordant read pairs, especially for short-read sequencing data. This data set was manually curated, based on the <a href="../cgi-bin/hgGateway">Genome Browser's assembly</a> description, the <a href="https://genome.ucsc.edu/FAQ/FAQdownloads.html">FAQs</a> about assembly, and the <a href="../cgi-bin/hgTrackUi?db=hg19&g=refSeqComposite">NCBI RefSeq "other" annotations</a> track data. </p> <p> The <b>ENCODE Blacklist</b> subtrack contains a comprehensive set of regions which are troublesome for high-throughput Next-Generation Sequencing (NGS) aligners. These regions tend to have a very