v2.0.0: Optimized MAGMA pipeline with NTM support

[abhi18av]

What's Changed

• Add MTB_L10 reference in the bundled GVCF by @abhi18av in Add MTB_L10 reference in the bundled GVCF #200
• Iteration for v2.0.0-beta release - update GVCF by @abhi18av in Iteration for v2.0.0-beta release - update GVCF #201
• Remove the custom built who-magma database for tb-profiler by @abhi18av in Remove the custom built who-magma database for tb-profiler #203
• Improve strand bias filter for minor/infrequent variants by @abhi18av in Improve strand bias filter for minor/infrequent variants #202
• Simplify the samplesheet by @abhi18av in Simplify the samplesheet #204
• Compute FASTQ stats from the input samplesheet by @abhi18av in Compute FASTQ stats from the input samplesheet #205
• Enable the ITOL annotations in the tb-profiler command by @abhi18av in Enable the ITOL annotations in the tb-profiler command #197
• Add clarification for bqsr recaliberated files by @abhi18av in Add clarification for bqsr recaliberated files  #213
• Structural variants v2 - accommodate transposable elements by @abhi18av in Structural variants v2 - accommodate transposable elements #209
• Update convert_ismapper_to_vcf.py by @vrennie in Update convert_ismapper_to_vcf.py #214
• Iteration for 2.0.0-beta release by @abhi18av in Iteration for 2.0.0-beta release  #206

Full Changelog: v2.0.0-alpha...v2.0.0-beta

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This discussion was created from the release v2.0.0: Optimized MAGMA pipeline with NTM support.