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automate_demultiplex
automate_demultiplex PublicScripts for routine analysis of clinical next generation sequencing (NGS) data at Synnovis Genetics
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dnanexus_swiss_army_SNP_bcftools_filter
dnanexus_swiss_army_SNP_bcftools_filter PublicThis repository contains the commands executed by the swiss army knife app (v3.0.0) to format a VCF according to GeL specifications for SNP ID checks
Shell 2
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dx_api_bridge
dx_api_bridge PublicDNAnexus API bridge. Retrieve data object URIs. Manage archival processes and perform cost audits.
Python 1
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adhoc_scripts
adhoc_scripts PublicScripts for adhoc changes. See readme for details of each script
Python 1
Repositories
- automate_demultiplex Public
Scripts for routine analysis of clinical next generation sequencing (NGS) data at Synnovis Genetics
- turing_workstation_crontab Public
- dx_api_bridge Public
DNAnexus API bridge. Retrieve data object URIs. Manage archival processes and perform cost audits.
- gstt_primer_design Public
- SCIP_DNAnexus Public
DNAnexus app which runs the SCIP python script in a docker container, predicting fetal sickle cell status and outputting an HTML report
- SCIP Public
- dnanexus_verifybamid Public
DNAnexus app which runs verifyBamID to detect sample contamination from population allele frequencies
- dnanexus_peddy Public
DNAnexus app running peddy v0.4.8 (https://github.com/brentp/peddy) to perform a run wide QC check that the assigned gender matches the sample
- dnanexus_multiqc Public
DNAnexus app running MultiQC to generate run wide quality control (QC) using the outputs from MokaAMP, MokaPipe and MokaWES pipelines
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