From 8616aacc00d5803c5a01fe43a1c2f94ca4b61b43 Mon Sep 17 00:00:00 2001 From: "Jimwel Bryan Christopher P. Ferrer" <153916783+J1mmmmmm@users.noreply.github.com> Date: Tue, 3 Mar 2026 10:21:15 +0800 Subject: [PATCH] Scheme addition for porcine circovirus 2 --- .../bioassets-cgm-pcv2/700/v1.0.0/README.md | 52 +++++++++++++++++++ .../bioassets-cgm-pcv2/700/v1.0.0/info.json | 32 ++++++++++++ .../bioassets-cgm-pcv2/700/v1.0.0/plot.html | 9 ++++ .../bioassets-cgm-pcv2/700/v1.0.0/primer.bed | 13 +++++ .../bioassets-cgm-pcv2/700/v1.0.0/primer.html | 9 ++++ .../700/v1.0.0/reference.fasta | 31 +++++++++++ 6 files changed, 146 insertions(+) create mode 100644 primerschemes/bioassets-cgm-pcv2/700/v1.0.0/README.md create mode 100644 primerschemes/bioassets-cgm-pcv2/700/v1.0.0/info.json create mode 100644 primerschemes/bioassets-cgm-pcv2/700/v1.0.0/plot.html create mode 100644 primerschemes/bioassets-cgm-pcv2/700/v1.0.0/primer.bed create mode 100644 primerschemes/bioassets-cgm-pcv2/700/v1.0.0/primer.html create mode 100644 primerschemes/bioassets-cgm-pcv2/700/v1.0.0/reference.fasta diff --git a/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/README.md b/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/README.md new file mode 100644 index 0000000..c0c5323 --- /dev/null +++ b/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/README.md @@ -0,0 +1,52 @@ +# bioassets-cgm-pcv2 700bp v1.0.0 + +[![Generic badge](https://img.shields.io/badge/STATUS-draft-blue.svg)](https://labs.primalscheme.com/faqs) + +[primalscheme labs](https://labs.primalscheme.com/detail/bioassets-cgm-pcv2/700/v1.0.0) + +## Overviews + +## Details + +```json +{ + "ampliconsize": 700, + "schemeversion": "v1.0.0", + "schemename": "bioassets-cgm-pcv2", + "primer_bed_md5": "eaa8467b4ce7e57ebae0e246f465a11a", + "reference_fasta_md5": "d0ac088fd17608f42b9807019649afbb", + "status": "draft", + "citations": [], + "authors": [ + "BioAssets Corporation" + ], + "algorithmversion": "ps:330", + "species": [ + 85708 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.1.0", + "articbedversion": "v3.0", + "collections": [], + "links": { + "protocols": [], + "validation": [], + "homepage": [], + "vendors": [], + "misc": [] + }, + "refselect": null, + "description": null, + "derivedfrom": null, + "contactinfo": null +} +``` + + + +------------------------------------------------------------------------ + +This work is licensed under a [Creative Commons Attribution-ShareAlike 4.0 International License](http://creativecommons.org/licenses/by-sa/4.0/) + +![](https://i.creativecommons.org/l/by-sa/4.0/88x31.png) \ No newline at end of file diff --git a/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/info.json b/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/info.json new file mode 100644 index 0000000..9a8253b --- /dev/null +++ b/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/info.json @@ -0,0 +1,32 @@ +{ + "ampliconsize": 700, + "schemeversion": "v1.0.0", + "schemename": "bioassets-cgm-pcv2", + "primer_bed_md5": "eaa8467b4ce7e57ebae0e246f465a11a", + "reference_fasta_md5": "d0ac088fd17608f42b9807019649afbb", + "status": "draft", + "citations": [], + "authors": [ + "bioassets-corporation" + ], + "algorithmversion": "ps:330", + "species": [ + 85708 + ], + "license": "CC BY-SA 4.0", + "primerclass": "primerschemes", + "infoschema": "v2.1.0", + "articbedversion": "v3.0", + "collections": [], + "links": { + "protocols": [], + "validation": [], + "homepage": [], + "vendors": [], + "misc": [] + }, + "refselect": null, + "description": null, + "derivedfrom": null, + "contactinfo": null +} \ No newline at end of file diff --git a/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/plot.html b/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/plot.html new file mode 100644 index 0000000..74eeea1 --- /dev/null +++ b/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/plot.html @@ -0,0 +1,9 @@ +
+
\ No newline at end of file diff --git a/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/primer.bed b/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/primer.bed new file mode 100644 index 0000000..c710e37 --- /dev/null +++ b/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/primer.bed @@ -0,0 +1,13 @@ +# artic-bed-version v3.0 +# pc=PrimerCountInMSA +NC_005148.1 2 25 246c4c96_1_LEFT_1 1 + GCCCAGCAAGAAGAGTGGAAGAA pc=87 +NC_005148.1 1 25 246c4c96_1_LEFT_2 1 + TGCCCAGCAAAAAGAATGGAAGAA pc=115 +NC_005148.1 1 25 246c4c96_1_LEFT_3 1 + TGCCCAGCAAGAAGAATGGAAGAA pc=182 +NC_005148.1 769 791 246c4c96_1_RIGHT_1 1 - GAGTACCATTCCAACGGGGTCT pc=409 +NC_005148.1 595 619 246c4c96_2_LEFT_1 2 + GAAACAAGTGGTGGGATGGTTACC pc=379 +NC_005148.1 1363 1387 246c4c96_2_RIGHT_1 2 - AGGTTAAGGTTGAATTCTGGCCCT pc=333 +NC_005148.1 997 1029 246c4c96_3_LEFT_1 1 + GGGGGTCTTTAAGATTAAATTCTCTGAATTGT pc=347 +NC_005148.1 1715 1735 246c4c96_3_RIGHT_1 1 - TGCCGAAGTGCGCTGGTAAT pc=404 +NC_005148.1 1541 1562 246c4c96_4_LEFT_1 2 + GCGGGTGTTGAAGATGCCATT pc=323 +NC_005148.1 1540 1562 246c4c96_4_LEFT_2 2 + GGCGGCTGTTGAAAATGCCATT pc=25 +NC_005148.1 425 448 246c4c96_4_RIGHT_1 2 - GCCCGCGGAAATTTCTGACAAAC pc=402 diff --git a/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/primer.html b/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/primer.html new file mode 100644 index 0000000..6c6c798 --- /dev/null +++ b/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/primer.html @@ -0,0 +1,9 @@ +
+
\ No newline at end of file diff --git a/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/reference.fasta b/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/reference.fasta new file mode 100644 index 0000000..084d38e --- /dev/null +++ b/primerschemes/bioassets-cgm-pcv2/700/v1.0.0/reference.fasta @@ -0,0 +1,31 @@ +>NC_005148.1 +ATGCCCAGCAAGAAGAATGGAAGAAGCGGACCCCAACCACACAAAAGGTGGGTGTTCACG +CTGAATAATCCTTCCGAAGACGAGCGCAAGAAAATACGGGAGCTTCCAATCTCCCTTTTT +GATTATTTTATTGTTGGCGAGGAGGGTAATGAGGAAGGACGAACACCCCACCTCCAGGGG +TTCGCTAATTTTGTGAAGAAGCAAACATTTAATAAAGTGAAATGGTATTTCGGTGCCCGC +TGCCACATCGAGAAAGCGAAAGGAACTGATCAGCAGAATAAAGAATACTGCAGTAAAGAA +GGCAACTTACTGATGGAATGTGGAGCTCCTAGATCTCAAGGACAACGGAGTGACCTGTCT +ACTGCTGTGAGTACCTTGTTGGAGAGCGGGAGTCTGGTGACCGTTGCAGAGCAGCACCCT +GTAACGTTTGTCAGAAATTTCCGCGGGCTGGCTGAACTTTTGAAAGTGAGCGGGAAAATG +CAGAAGCGTGATTGGAAGACCAATGTACACGTCATTGTGGGGCCACCTGGGTGTGGTAAA +AGCAAATGGGCTGCTAATTTTGCAGACCCGGAAACCACATACTGGAAACCACCTAGAAAC +AAGTGGTGGGACGGTTACCATGGTGAAGAAGTGGTTGTTATTGATGACTTTTATGGCTGG +CTGCCGTGGGATGATCTACTGAGATTGTGTGATCGATATCCATTGACTGTAGAGACTAAA +GGTGGAACTGTACCTTTTTTGGCCCGCAGTATTCTGATTACCAGCAATCAGACCCCGTTG +GAATGGTACTCCTCAACTGCTGTCCCAGCTGTAGAAGCTCTCTATCGGAGGATTACTTCC +TTGGTATTTTGGAAGAATGCTACAGAACAATCCACGGAGGAAGGGGGCCAGTTCGTCACC +CTTTCCCCCCCATGCCCTGAATTTCCATATGAAATAAATTACTGAGTCTTTTTTATCACT +TCGTAATGGTTTTTATTATTCATTTAGGGTTTAAGTGGGGGGTCTTTAAGATTAAATTCT +CTGAATTGTACATACATGGTTACACGGATATTGTAGTCCTGGTCGTATTTACTGTTTTCG +AACGCAGTGCCGAGGCCTACGTGGTCCACATTTCTACTGGTTTGTAGTCTCATCCACAGC +TGATTCCTTTTGTTATTTGGTTGGAAGTAATCAATAGTGGAATCAAGAACAGGTTTGGGT +GTGAAGTAACGGGAGTGGTAGGAGAAGGGTTGGGGGATTGTATGGCGGGAGGAGTAGTTT +ACATAGGGGTCATAGGTTTGGGCTGTGGCCTTTATTACAAAGTTGTCATCTAGAATAATA +GCACTGGATCCAACTCCCCTGTCACCCTGGGTGATCGGGGAGCAGGGCCAGAATTCAACC +TTAACCTTTCTTATTCTGTAGTATTCAAAGGGTATAGAGATTTTGTTGGTCCCCCCTCCC +GGGGGAACAAAGTCGTCAAGATTAAATCTCAGCATGTCCACCGCCCAGGAGGGCGTGCTG +ACTGTGGTAGCCTTGACAGTATATCCGAAGGTGCGGGAGAGGCGGGCGTTGAAGATGCCA +TTTTTCCTTCTCCAGCGGTAACGGTGGCGGGGGTGGACGAGCCAGGGGCGGCGGCGGAGG +ATCTGGCCAAGATGGCTGCGGGGGCGGTGTCTTCTCCTTCGGTAACGCCTCCTTGGATAC +GTCATACCTGAAAACGAAAGAAGTGCGCTGTAAGTATTACCAGCGCACTTCGGCAGCGGC +AGCACCTCGGCAGCACCTCAGCAGCAAC