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2.2.0
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@yihming yihming released this 04 Oct 22:46
· 143 commits to master since this release
2.2.0
1183afc
  • New Features:
    • Add Nanostring GeoMx DSP workflows. It consists of two steps:
      • GeoMx_fastq_to_dcc workflow to convert FASTQ files into DCC files by wrapping Nanostring GeoMx Digital Spatial NGS Pipeline.
      • GeoMx_dcc_to_count_matrix workflow to generate probe count matrix from DCC files with pathologists’ annotation.
  • Updates:
    • Spaceranger workflow:
      • Add support on 10x Space Ranger v2.0.0.
      • Add human_probe_v2 Probe Set for FFPE samples, which is compatible with CytAssist FFPE samples.
    • Upgrade cumulus_feature_barcoding_version default to v0.11.0 for Feature Barcoding in Cellranger workflow.
  • API Changes:
    • Across all workflows, for AWS backend:
      • All workflows now have awsQueueArn input, which is used for explicitly specifying the Arn string of an AWS Compute Environment.
      • Remove awsMaxRetries input for all workflows. Namely, use Cromwell’s default value 0.
  • Bug Fix:
    • Fix the issue on localizing GCP folders in Cellranger workflow for ATAC-Seq and 10x Multiome data.
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