3545ad4bc93b9a36a73ad9f2f9005ddcdb87bd47 markd Tue Aug 15 16:42:41 2023 -0700 fixed doc to match accidental rename in directory diff --git src/hg/makeDb/doc/hs1/t2t-supplied.txt src/hg/makeDb/doc/hs1/t2t-supplied.txt index 7685623..7742b0d 100644 --- src/hg/makeDb/doc/hs1/t2t-supplied.txt +++ src/hg/makeDb/doc/hs1/t2t-supplied.txt @@ -30,32 +30,34 @@ ================================================================ proseq (2022-02-21 markd) ---------------------------------------------------------------- Supplied by Savannah Hoyt <savannah.klein@uconn.edu> from T2T Globus /team-epigenetics/PROseq-RNAseq_chm13v1.1/MappedToCHM13v1.1/PROseq_Bowtie2/ trackData/proseq renaming files to something not as long CHM13-AB_proseq_cutadapt-q20-m20_bt2-vs-dM_bt2-chm13v1.1_neg.bigwig -> PROseq_default_neg.bw CHM13-AB_proseq_cutadapt-q20-m20_bt2-vs-dM_bt2-chm13v1.1_pos.bigwig -> PROseq_default_pos.bw CHM13-AB_proseq_cutadapt-q20-m20_bt2-vs-dM_bt2-k100-chm13v1.1_meryl-21mer-chm13v1.1_neg.bigwig -> PROseq_k100_21mer_neg.bw CHM13-AB_proseq_cutadapt-q20-m20_bt2-vs-dM_bt2-k100-chm13v1.1_meryl-21mer-chm13v1.1_pos.bigwig -> PROseq_k100_21mer_pos.bw CHM13-AB_proseq_cutadapt-q20-m20_bt2-vs-dM_bt2-k100-chm13v1.1_neg.bigwig -> PROseq_k100_neg.bw CHM13-AB_proseq_cutadapt-q20-m20_bt2-vs-dM_bt2-k100-chm13v1.1_pos.bigwig -> PROseq_k100_pos.bw - PROseq_k100_AB.markersandlength_meryl-21mer-chm13v1.1_neg.bigwig -> PROseq_k100_dual_21mer_neg.bw - PROseq_k100_AB.markersandlength_meryl-21mer-chm13v1.1_pos.bigwig -> PROseq_k100_dual_21mer_pos.bw + PROseq_k100_AB.markersandlength_meryl-21mer-chm13v1.1_neg.bigwig -> PROseq_k100_dual-21mer_neg.bw + PROseq_k100_AB.markersandlength_meryl-21mer-chm13v1.1_pos.bigwig -> PROseq_k100_dual-21mer_pos.bw + +Note: PROseq_k100_dual-21mer_*.bw accidental had inconsistent names lngbdb proseq/*.bw ================================================================ rnaseq (2022-03-02 markd) ---------------------------------------------------------------- Supplied by Savannah Hoyt <savannah.klein@uconn.edu> /team-epigenetics/PROseq-RNAseq_chm13v1.1/MappedToCHM13v1.1/RNAseq_Bowtie2/ renaming files to something not as long CHM13_S182-183_rnaseq_cutadapt-q20-m100_bt2-chm13v1.1_F1548.bigwig -> RNAseq_default.bw CHM13_S182-183_rnaseq_cutadapt-q20-m100_bt2-k100-chm13v1.1_F1548.bigwig -> RNAseq_k100.bw CHM13_S182-S183_rnaseq_cutadapt-q20-m100_bt2-k100-chm13v1.1-F1548_meryl-21mer-chm13v1.1.bigwig -> RNAseq_k100_21mer.bw RNAseq_k100_AB.markersandlength_meryl-21mer-chm13v1.1.bigwig -> RNAseq_k100_dual_21mer.bw @@ -398,19 +400,19 @@ ================================================================ Problems: - hub groups doesn't have phenDis, so put clinvar and GWAS in varRep FIX THIS ================================================================ ================================================================ proseq update (2023-08-15 markd) ---------------------------------------------------------------- Supplied by Savannah Hoyt <savannah.klein@uconn.edu> two files were discovered to be missing chr1 and recreated. from T2T Globus /team-epigenetics/PROseq-RNAseq_chm13v1.1/MappedToCHM13v1.1/PROseq_Bowtie2/ renaming files to something not as long - PROseq_k100_AB.markersandlength_meryl-21mer-chm13v1.1_neg.bigwig -> PROseq_k100_dual_21mer_neg.bw - PROseq_k100_AB.markersandlength_meryl-21mer-chm13v1.1_pos.bigwig -> PROseq_k100_dual_21mer_pos.bw + PROseq_k100_AB.markersandlength_meryl-21mer-chm13v1.1_neg.bigwig -> PROseq_k100_dual-21mer_neg.bw + PROseq_k100_AB.markersandlength_meryl-21mer-chm13v1.1_pos.bigwig -> PROseq_k100_dual-21mer_pos.bw and put in /hive/data/genomes/hs1/bed/proseq/, which still symlinked in /gbdb/