NGS Support

Illumina sequencer run setup services (ngs-pipeline)  and UTAP 

The bioinformatics unit provides several services for processing NGS data, divided into 2 main steps as follows:

1. NGS setup and services (ngs-pipeline) that assist with retrieving raw fastq or demultiplexed files, and provide quality control measures for each sample that was sequenced including:

   1. Sequencing setup

   2. Additional services for sequences

2. Our User-friendly Transcriptome Analysis Pipeline (UTAP) -  Click to go to our UTAP site

   1. Analysis setup after sequencing completes

   2. Analysis pipeline steps and reports 

List of links 

Sequencing pipeline:

https://ngs-pipeline.weizmann.ac.il/

Help page:

https://ngs-pipeline.weizmann.ac.il/ngsb/howto

QC:

http://stefan.weizmann.ac.il/fqc/{type RUN ID here}, for example:

http://stefan.weizmann.ac.il/raw/180509_NB551168_0120_AHTKN2BGX5/

List of runs, with delete functionality:

https://ngs-pipeline.weizmann.ac.il/ngsb/storage

Transcriptome pipeline:

http://ngspipe.wexac.weizmann.ac.il:7000

Demo of the UTAP interface:

UTAP - User-friendly Transcriptome Analysis Pipeline (for external users)

Acknowledgments

Citation: 

Kohen et al. BMC Bioinformatics (2019) 20:154 https://doi.org/10.1186/s12859-019-2728-2 (PMID: 30909881) 

Bioinformatics support staff for UTAP: 

• UTAP team (UTAP maintenance) utap@weizmann.ac.il
• Dena Leshkowitz
• Ester Feldmesser 
• Gil Stelzer
• Bareket Dassa
• Noa Wigoda

Visit our web site http://www.weizmann.ac.il/LS_CoreFacilities/bioinformatics-lscf/about