- 2017-10: ONT-HG1 (Cliveome2) rebasecalled data from 2017-05.
- 2017-05: ONT-HG1 (Cliveome2) GridION data release 2017-05.
Two GridION runs were performed. The latest update removes previous basecalls and replaces them with basecalls obtained from a development version of the GPU accelerated guppy basecaller. This basecaller contains several advances and fixes to that used previously; hence the removal of the previous calls.
The alignments provided here were obtained with minimap2 using approximately:
ALIGN_OPTS="-x map-ont -A1 -B2 -O2 -E1"
REF=g1kv37/g1kv37.fa
minimap2 -d ${REF}.mmi ${ALIGN_OPTS} ${REF}
minimap2 ${ALIGN_OPTS} -a ${REF}.mmi <reads.fq> | samtools view -T {REF} -F 2308 > …Note therefore that only primary alignments are included (secondary and supplementary alignments are removed as well as unmapped reads). The genome build used here although not the most recent is that which is referenced in the 23andMe results found below.
An association between the alignment record identifiers that .fast5 filenames can be found in the Guppy basecalling_summary.txt.gz found below.
| Date | Size | File | Description | MD5 |
|---|---|---|---|---|
| 2017-10 | 130G | BAM | merged | d80e3620e0cf6fa97b2cb61ec507eabc |
| 2017-10 | 9.6G | BAM | Chr1 | 0fd4438c83648746a306544977c9d53a |
| 2017-10 | 11G | BAM | Chr2 | a32ca31a172259b199953b0e8bc37fcd |
| 2017-10 | 8.3G | BAM | Chr3 | 2204c24a622207be8526588ee1ea118b |
| 2017-10 | 8.7G | BAM | Chr4 | 7a9872783640b506f19d382343e3742f |
| 2017-10 | 7.6G | BAM | Chr5 | b8348ad5581f9cc4b056e1304c03d5a5 |
| 2017-10 | 7.3G | BAM | Chr6 | 7944b310b73acc9765c0450c65a7f5b6 |
| 2017-10 | 6.8G | BAM | Chr7 | 9c53c3ac83aa40b9e9530d3c0395919d |
| 2017-10 | 6.4G | BAM | Chr8 | e3a901cd523e403de2cc7cdfb8e887e7 |
| 2017-10 | 5.1G | BAM | Chr9 | 1acf365933799e7ed8259a9566ed6c48 |
| 2017-10 | 7.0G | BAM | Chr10 | d3d5499202ded1ce9adadaa2acec3b0c |
| 2017-10 | 5.6G | BAM | Chr11 | e38f95d049b1a31adf758a202a5e2e83 |
| 2017-10 | 5.6G | BAM | Chr12 | d0e519aea2afd44588c0b9ce41b8df09 |
| 2017-10 | 4.2G | BAM | Chr13 | 3b6395310c76debb33b62c3617a1a817 |
| 2017-10 | 3.8G | BAM | Chr14 | cbe2891b31936faec37f85e13c2e21d0 |
| 2017-10 | 3.4G | BAM | Chr15 | f41c90a9218dee39c21f3017c7577224 |
| 2017-10 | 3.6G | BAM | Chr16 | 2c5993605a24d50a7f23c9c997cdf29c |
| 2017-10 | 3.3G | BAM | Chr17 | d7b369aa2389ff43ba60933760df73c1 |
| 2017-10 | 3.3G | BAM | Chr18 | 55f7e906363ea4738bc1f69d42ad17d3 |
| 2017-10 | 2.5G | BAM | Chr19 | 0c007c5a5ea9b4be353d6264d5e9b98b |
| 2017-10 | 2.5G | BAM | Chr20 | 14728d4e54fcc489e81dd4935cee09f1 |
| 2017-10 | 1.7G | BAM | Chr21 | 8e0f9f2b063f3ee47486d80ff7d15319 |
| 2017-10 | 1.6G | BAM | Chr22 | 011feb160c0b4bda8b89f91ff2706376 |
| 2017-10 | 3.4G | BAM | ChrX | d3457a210f5dbcedf3d2b1814e29c8d7 |
| 2017-10 | 948M | BAM | ChrY | 952b93a64cd04f0aa2fe089abddc40e8 |
| Date | Size | File | Description | MD5 |
|---|---|---|---|---|
| 2017-10 | 1.1G | TXT | Guppy basecalling_summary.txt.gz | 9eb4b22b7c5fd7dc410bf33db1027cef |
| 2017-10 | 49M | BAI | merged | d80e3620e0cf6fa97b2cb61ec507eabc |
| 2017-10 | 3.9M | BAI | Chr1 | 95859b0eac10349270dc91d8b2a11e99 |
| 2017-10 | 4.4M | BAI | Chr2 | 6bad5cfe938778250e35270ed5a033e7 |
| 2017-10 | 3.5M | BAI | Chr3 | 10194175ece7f20cd848799f0ea03e35 |
| 2017-10 | 3.6M | BAI | Chr4 | c07aae35c0b2c1a357c56e080316af62 |
| 2017-10 | 3.2M | BAI | Chr5 | ce494e9ee932a80aa94616207e5a8dc6 |
| 2017-10 | 3.0M | BAI | Chr6 | 38fc20209f7fc06f81ae3a2e9c5cde9c |
| 2017-10 | 2.8M | BAI | Chr7 | 485924ab264e33f15bfdd13e190b3264 |
| 2017-10 | 2.6M | BAI | Chr8 | fb8062e233eef1b3647148c7fd34fa83 |
| 2017-10 | 2.1M | BAI | Chr9 | 356019b3761502ded684ea2a6c3ca1bc |
| 2017-10 | 2.5M | BAI | Chr10 | 9b582b402782c8be1229a78fd600391b |
| 2017-10 | 2.3M | BAI | Chr11 | 6a7dfd7805eca7af43a1e32e74af3c8f |
| 2017-10 | 2.3M | BAI | Chr12 | e0f3052b106caeb1d957e47ff2523b7b |
| 2017-10 | 1.7M | BAI | Chr13 | 5b506984df5606b329df41ecc5348203 |
| 2017-10 | 1.6M | BAI | Chr14 | 0c0e0019b40afeb0aff6d326826db29a |
| 2017-10 | 1.5M | BAI | Chr15 | 5d25fdbc2580cecee3e20c75349ad370 |
| 2017-10 | 1.5M | BAI | Chr16 | 84a1a295d8e8cf468e8715b4849c21b4 |
| 2017-10 | 1.3M | BAI | Chr17 | 6ff30bc38696fb63556653153ff27e2d |
| 2017-10 | 1.4M | BAI | Chr18 | 31b6071d1cfb4beda3b510044580700c |
| 2017-10 | 1.1M | BAI | Chr19 | 7a28abed3be88e00b5d54e393df0e9c5 |
| 2017-10 | 1.0M | BAI | Chr20 | ec9ed04df3d2e336e505eb686c96a34a |
| 2017-10 | 679K | BAI | Chr21 | 1a75e5a1bbff059ff90b232fde36357f |
| 2017-10 | 574K | BAI | Chr22 | 9adf6e4e25d152a846f20b233e74ac59 |
| 2017-10 | 1.6M | BAI | ChrX | d27ff8e92b93c9fba7dde25336b4cbb6 |
| 2017-10 | 390K | BAI | ChrY | 663d6e3795f3459c777dd79c1415e69e |
| Date | Size | Indices | MD5 |
|---|---|---|---|
| 2016-05 | 116M | Fast5 | d80e3620e0cf6fa97b2cb61ec507eabc |
- To download fast5s, fetch each URL from the file listing above, using e.g. wget -i fast5-listing.txt.gz
| Name | Size | Links | MD5 |
|---|---|---|---|
| 23andMe SNPs | 5M | SNPs | 6c7464d34dfc3f6d31439eaaf823a344 |