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change data type to float to allow large integers
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@smgogarten
smgogarten committed Sep 6, 2024
1 parent 6adac75 commit 06f253a
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10 changes: 10 additions & 0 deletions CHANGELOG.md
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|called_variants_nanopore |chrom |added; not required |
|called_variants_pac_bio |chrom |added; not required |
|called_variants_optical_mapping |chrom |added; not required |
|aligned_nanopore |num_reads |changed data type to float for large number support |
|aligned_nanopore |num_bases |changed data type to float for large number support |
|aligned_nanopore |num_aligned_reads |changed data type to float for large number support |
|aligned_nanopore |num_aligned_bases |changed data type to float for large number support |
|aligned_nanopore |read_length_mean |changed data type to float |
|aligned_pac_bio |num_reads |changed data type to float for large number support |
|aligned_pac_bio |num_bases |changed data type to float for large number support |
|aligned_pac_bio |num_aligned_reads |changed data type to float for large number support |
|aligned_pac_bio |num_aligned_bases |changed data type to float for large number support |
|aligned_pac_bio |read_length_mean |changed data type to float |


## 1.5.2
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50 changes: 29 additions & 21 deletions GREGoR_data_model.json
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Expand Up @@ -345,7 +345,7 @@
"data_type": "enumeration",
"enumerations": ["SNV", "INDEL", "SV", "CNV", "RE", "MEI", "STR"],
"multi_value_delimiter": "|",
"examples": "SNV/INDEL",
"examples": "SNV|CNV",
"notes": "SNV: single nucelotide variants\nINDEL: short insertion/deletions (<50bp)\nRE: repeat elements\nSV: structural variants, including copy number variants and mobile element insertions"
},
{
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{
"column": "num_reads",
"description": "Total reads (before/ignoring alignment)",
"data_type": "integer",
"examples": "11946552"
"data_type": "float",
"examples": "11946552",
"notes": "float type required for large number, but value entered should be an integer"
},
{
"column": "num_bases",
"description": "Number of bases (before/ignoring alignment)",
"data_type": "integer",
"examples": "101126719147"
"data_type": "float",
"examples": "101126719147",
"notes": "float type required for large number, but value entered should be an integer"
},
{
"column": "read_length_mean",
"description": "Mean length of all reads (before/ignoring alignment)",
"data_type": "integer",
"data_type": "float",
"examples": "18232"
},
{
"column": "num_aligned_reads",
"description": "Total aligned reads",
"data_type": "integer",
"examples": "10751896"
"data_type": "float",
"examples": "10751896",
"notes": "float type required for large number, but value entered should be an integer"
},
{
"column": "num_aligned_bases",
"description": "Number of bases in aligned reads",
"data_type": "integer",
"examples": "91014047232"
"data_type": "float",
"examples": "91014047232",
"notes": "float type required for large number, but value entered should be an integer"
},
{
"column": "aligned_read_length_mean",
"description": "Mean length of aligned reads",
"data_type": "integer",
"data_type": "float",
"examples": "18104"
},
{
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{
"column": "num_reads",
"description": "Total reads (before/ignoring alignment)",
"data_type": "integer",
"examples": "11946552"
"data_type": "float",
"examples": "11946552",
"notes": "float type required for large number, but value entered should be an integer"
},
{
"column": "num_bases",
"description": "Number of bases (before/ignoring alignment)",
"data_type": "integer",
"examples": "101126719147"
"data_type": "float",
"examples": "101126719147",
"notes": "float type required for large number, but value entered should be an integer"
},
{
"column": "read_length_mean",
"description": "Mean length of all reads (before/ignoring alignment)",
"data_type": "integer",
"data_type": "float",
"examples": "18232"
},
{
"column": "num_aligned_reads",
"description": "Total aligned reads",
"data_type": "integer",
"examples": "10751896"
"data_type": "float",
"examples": "10751896",
"notes": "float type required for large number, but value entered should be an integer"
},
{
"column": "num_aligned_bases",
"description": "Number of bases in aligned reads",
"data_type": "integer",
"examples": "91014047232"
"data_type": "float",
"examples": "91014047232",
"notes": "float type required for large number, but value entered should be an integer"
},
{
"column": "aligned_read_length_mean",
"description": "Mean length of aligned reads",
"data_type": "integer",
"data_type": "float",
"examples": "18104"
},
{
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