From fb6ef5ea94dbf2a2cb648662993d535e4b0eae84 Mon Sep 17 00:00:00 2001 From: chunlinxiao Date: Tue, 11 Apr 2023 13:50:27 -0400 Subject: [PATCH] Update README.md --- README.md | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/README.md b/README.md index 45477da..25e0711 100644 --- a/README.md +++ b/README.md @@ -31,10 +31,10 @@ Mother:HG004     https://ftp.ncbi.nlm.nih.gov/ReferenceSamples/g | Oxford Nanopore 2D | [All](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_HG002_Cornell_Oxford_Nanopore_fasta_fastq_10132015)     [HG002](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_HG002_Cornell_Oxford_Nanopore_fasta_fastq_10132015.HG002) | - | | Oxford Nanopore ultralong (guppy-V3.2.4_2020-01-22) | [All](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_UCSC_ONT_UL_guppy-V3.2.4_2020-01-22)     [HG002](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_UCSC_ONT_UL_guppy-V3.2.4_2020-01-22.HG002) | minimap2:whatshap:hg19   [All](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/alignment.index.AJtrio_UCSC_ONT_UL_guppy-V3.2.4_2020-01-22.HG002)     [HG002](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/alignment.index.AJtrio_UCSC_ONT_UL_guppy-V3.2.4_2020-01-22.HG002) | | Oxford Nanopore ultralong Promethion | [All](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_UCSC_ONT_UL_Promethion_03312019)     [HG002](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_UCSC_ONT_UL_Promethion_03312019.HG002)     [HG003](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_UCSC_ONT_UL_Promethion_03312019.HG003)     [HG004](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_UCSC_ONT_UL_Promethion_03312019.HG004) | - | -| BGI BGISEQ500 | [All](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/sequence.index.AJtrio_BGISEQ500_01042019)     [HG002](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/sequence.index.AJtrio_BGISEQ500_01042019.HG002) | - | -| BGI MGISEQ PCR-free | [All](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/sequence.index.AJtrio_BGI_MGISEQ_PCRfree_11052018)     [HG002](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/sequence.index.AJtrio_BGI_MGISEQ_PCRfree_11052018.HG002) | - | -| BGI stLFR | [All](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/sequence.index.AJtrio_BGI_MGISEQ_stLFR_07112018)     [HG002](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/sequence.index.AJtrio_BGI_MGISEQ_stLFR_07112018.HG002)     [HG003](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/sequence.index.AJtrio_BGI_MGISEQ_stLFR_07112018.HG003)     [HG004](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/sequence.index.AJtrio_BGI_MGISEQ_stLFR_07112018.HG004) | [All:bwamem:hg19](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/alignment.index.AJtrio_BGI_stLFR_bwamem_GRCh37_07112018)     [HG002](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/alignment.index.AJtrio_BGI_stLFR_bwamem_GRCh37_07112018.HG002)     [HG003](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/alignment.index.AJtrio_BGI_stLFR_bwamem_GRCh37_07112018.HG003)     [HG004](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/alignment.index.AJtrio_BGI_stLFR_bwamem_GRCh37_07112018.HG004) | -| Strand-Seq HG002 by BCCRC | [All](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/sequence.index.AJtrio_HG002_Strand-seq_BCCRC_04202020)     [HG002](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/sequence.index.AJtrio_HG002_Strand-seq_BCCRC_04202020) | - | +| BGI BGISEQ500 | [All](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_BGISEQ500_01042019)     [HG002](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_BGISEQ500_01042019.HG002) | - | +| BGI MGISEQ PCR-free | [All](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_BGI_MGISEQ_PCRfree_11052018)     [HG002](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_BGI_MGISEQ_PCRfree_11052018.HG002) | - | +| BGI stLFR | [All](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_BGI_MGISEQ_stLFR_07112018)     [HG002](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_BGI_MGISEQ_stLFR_07112018.HG002)     [HG003](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_BGI_MGISEQ_stLFR_07112018.HG003)     [HG004](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_BGI_MGISEQ_stLFR_07112018.HG004) | [All:bwamem:hg19](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/alignment.index.AJtrio_BGI_stLFR_bwamem_GRCh37_07112018)     [HG002](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/alignment.index.AJtrio_BGI_stLFR_bwamem_GRCh37_07112018.HG002)     [HG003](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/alignment.index.AJtrio_BGI_stLFR_bwamem_GRCh37_07112018.HG003)     [HG004](https://github.com/genome-in-a-bottle/giab_data_indexes/blob/master/AshkenazimTrio/alignment.index.AJtrio_BGI_stLFR_bwamem_GRCh37_07112018.HG004) | +| Strand-Seq HG002 by BCCRC | [All](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_HG002_Strand-seq_BCCRC_04202020)     [HG002](https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/data_indexes/AshkenazimTrio/sequence.index.AJtrio_HG002_Strand-seq_BCCRC_04202020) | - | * CompleteGenomics LFR raw or alignment data not available, but analysis results available under: https://ftp.ncbi.nlm.nih.gov/ReferenceSamples/giab/data/AshkenazimTrio/analysis/CompleteGenomics_newLFR_CGAtools_06122015/