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• feature/fix_gatk_combine_cli
• develop
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• no_samtools_view
• feature/read_install_config
• feature/bwa_mem2_update
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• feature/plink_fixes
• 1697/merge
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• 1711/merge
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• 1715/merge
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• 1716/merge
• 1717/merge
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• 1718/merge
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• 1720/merge
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• 1726/merge
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• 1728/merge
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• 1730/merge
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• 1731/merge
• 1732/merge
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• v9.0.6
• 1733/merge
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• 1734/merge
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• 1736/merge
• 1741/merge
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• 1744/merge
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• 1746/merge
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• 1747/merge
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• 1751/merge
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• 1752/merge
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• 1761/merge
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• 1763/merge
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• 1765/merge
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• 1766/merge
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• 1767/merge
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• 1768/merge
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• 1769/merge
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• 1773/merge
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• 1774/merge
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• 1775/merge
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• 1777/merge
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• 1781/merge
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• 1783/merge
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• 1785/merge
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• 1789/merge
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• 1790/merge
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• 1791/merge
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• 1793/merge
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• 1795/merge
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• 1796/merge
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• 1797/merge
• 1798/merge
• release/v9.1.3
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• 1799/merge
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• 1801/merge
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• 1802/merge
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• 1805/merge
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• 1807/merge
• 1808/merge
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• 1809/merge
• 1810/merge
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• 1811/merge
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• 1812/merge
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• 1813/merge
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• 1819/merge
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• 1820/merge
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• 1822/merge
• 1821/merge
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• 1823/merge
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• 1825/merge
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• 1826/merge
• feature/add_percentage_mapped_reads_from_samtool
• 1829/merge
• feature/serial_fusion_calling
• 1830/merge
• feature/update_tiddit
• 1831/merge
• feature/rename_arriba_contigs
• 1832/merge
• 1833/merge
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• 1835/merge
• feature/reference_check_vt
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• 1836/merge
• feature/pdfmerger
• 1838/merge
• feature/generate_readable_commands
• feature/bwa-mem2
• 1839/merge
• feature/update_smncopynumbercaller
• 1840/merge
• feature/update_cyrius
• 1841/merge
• 1842/merge
• feature/deepvariant_housekeeper_integration
• 1843/merge
• 1844/merge
• feature/clinical_fusion_report
• feature/bcftools_norm_fix_reference
• 1845/merge
• feature/bwa-mem2_update
• feature/revert_generate_readable_commands
• 1847/merge
• feature/splice_junction_tracks
• 1848/merge
• 1849/merge
• feature/rename_quant_file
• feature/rna_resource_bump
• 1850/merge
• feature/splice_track_fix
• 1852/merge
• 1853/merge
• feature/sambamba_rollback
• 1854/merge
• 1855/merge
• feature/update_telomerecat
• feature/remove_vt_install
• 1856/merge
• 1857/merge
• feature/update_svdb
• 1858/merge
• feature/update_gatk
• feature/rna_vcfparser
• 1860/merge
• 1861/merge
• feature/star_update
• 1862/merge
• 1863/merge
• feature/update_vep
• feature/deliverable_update
• 1864/merge
• feature/arriba_update
• 1865/merge
• feature/rna_genome_ref
• 1866/merge
• feature/megafusion_update
• 1867/merge
• feature/update_starfusion
• feature/update_reference
• 1868/merge
• 1869/merge
• feature/gencode_transcripts
• 1871/merge
• 1872/merge
• feature/bedtools
• feature/rna_doc
• 1873/merge
• feature/delly_update
• 1874/merge
• feature/glnexus
• 1875/merge
• 1876/merge
• feature/htslib
• feature/multiqc
• 1877/merge
• feature/bcftools_norm_cov
• 1878/merge
• feature/preseq
• 1879/merge
• 1880/merge
• feature/rseqc
• feature/rtg-tools
• 1881/merge
• 1882/merge
• feature/salmon
• feature/upd
• 1883/merge
• feature/update_rna_template
• 1884/merge
• 1885/merge
• feature/chromograph
• 1886/merge
• feature/blobfish
• 1887/merge
• feature/rseqc_build
• 1888/merge
• feature/bcftools_norm_update
• 1890/merge
• feature/rna_qc_mestrics
• 1891/merge
• feature/clinvar_ref
• 1892/merge
• release/10.0.0
• 1893/merge
• feature/fix_deepvariant_version_typo
• 1894/merge
• feature/no_atomize
• 1895/merge
• feature/bcftools_norm_recipe
• 1896/merge
• 1898/merge
• feature/info_download
• 1899/merge
• feature/rna_mt_contig
• feature/norm_rna_and_mt
• 1900/merge
• feature/recipe_bind_path_mod
• 1901/merge
• feature/norm_glnexus
• 1902/merge
• 1903/merge
• feature/rollback_telomercat
• feature/vcfparser_recipe_fix
• 1907/merge
• feature/cadd_index
• 1908/merge
• feature/htslib_rollback
• 1909/merge
• 1910/merge
• feature/bcftools_base
• v10.0.0
• 1911/merge
• release/10.0.1
• feat/stranger_update
• 1915/merge
• v10.0.1
• 1916/merge
• feature/gnomad_3.1.1_download
• release/10.0.2
• 1918/merge
• 1919/merge
• feature/hmtnote
• feature/gnomad_mt
• 1920/merge
• v10.0.2
• 1922/merge
• 1921/merge
• release/10.0.3
• 1923/merge
• v10.0.3
• 1924/merge
• feature/set_resources
• 1925/merge
• feature/update_download_paths
• 1926/merge
• 1927/merge
• feature/qc_collect_deliverable
• feature/start_after_recipe
• 1929/merge
• feature/start_after_recipe_flag
• 1930/merge
• feature/gnu_awk
• 1931/merge
• v10.1.0
• v10.2.0
• 1932/merge
• feature/mitodel
• 1933/merge
• feature/found_in_tag
• 1936/merge
• 1937/merge
• feature/deactivate_gatk
• update_software
• 1939/merge
• feature/limit_qc
• 1940/merge
• 1941/merge
• feature/ghcr_uri
• feature/update_glnexus_uri
• 1942/merge
• 1943/merge
• feat/fix_glnexus_permission
• 1946/merge
• hmtnote/quickfix
• hotfix/mt_filter
• 1947/merge
• feature/local_images
• 1950/merge
• v10.2.1
• 1952/merge
• feature/sv_freq_filter
• 1953/merge
• 1949/merge
• feature/references
• 1955/merge
• feature/hmtnote_version_regex
• feature/fixing_loqus_headers
• 1956/merge
• feature/trim_mt_anno_whitespace
• 1957/merge
• feature/change_to_bcftools_concat
• 1958/merge
• hotfix/add_missing_qc_value
• 1959/merge
• v10.2.2
• 1960/merge
• 1962/merge
• feature/more_qc_metrics
• 1964/merge
• feature/increased_AF_cutoff
• 1965/merge
• feature/paper_and_redirection
• feature/fixing_test_coverage
• 1966/merge
• release/11.0.0
• 1967/merge

fix(gatk_combine): Also remove gln_nexus from panel options