Non-exclusive Algorithms

Tools categorized as non-exclusive or streaming are listed in table below. Non-exclusive jobs have low resource demands and can be run concurrently on an execution node. Streaming jobs are I/O intensive. On single servers or job nodes, these can be run alongside non-exclusive tools, but not alongside other streaming tools on a given execution node. Exclusive tools always run alone. On grid nodes, streaming tools are treated as exclusive, and thus are always run alone.

Documentation about configuring simultaneous job execution:

Tool Streaming
Add attB Sites  
Amino Acid Changes X
Annotate from Known Variants X
Annotate with Conservation Scores X
Annotate with Exon Numbers X
Annotate with Flanking Sequences X
Annotate with GFF/GTF/GVF files  
Annotate with Nearby Information  
Annotate with Overlap Information X
Annotate with RNAcentral Accession Numbers  
Annotate with Repeat and Homopolymer Information  
Apply Peak Shape Filter  
Assemble Sequences  
Assemble Sequences to Reference  
BLAST at NCBI  
Basic Variant Detection  
Collapse Overlapping Annotations  
Combine Reports  
Convert DNA To RNA X
Convert RNA to DNA X
Convert to Tracks X
Convert from Tracks X
Copy Number Variant Detection (Targeted)  
Count-based statistical analysis  
Create Alignment  
Create BLAST Database  
Create Box Plot  
Create Combined miRNA Report  
Create Consensus Sequences from Variants  
Create Entry Clone (BP)  
Create Expression Browser  
Create Expression Clone (LR)  
Create GC Content Graph  
Create Histogram  
Create K-medoids Clustering for RNA-Seq  
Create MA Plot  
Create Mapping Graph Track  
Create Motif List from Sequences  
Create Pairwise Comparison  
Create RRBS-fragment Track  
Create Report from Table  
Create Sample Report  
Create Scatter Plot  
Create Sequence List  
Create Sequence Statistics  
Create Track from Experiment  
Create Track List  
Create Tree  
Create Variant Track Statistics Report  
Create Venn Diagram for RNA-Seq  
Demultiplex Reads  
Download 3D Protein Structure Database X
Download BLAST Databases X
Download Genomes  
Download Pfam Database X
Download Taxonomy  
Extract Annotated Regions  
Extract Consensus Sequence  
Extract IsomiR Counts  
Extract Reads  
Extract Sequences X
Filter against Known Variants X
Filter Based on Name X
Filter Based on Overlap X
Filter Homozygous Reference Variants  
Filter against Known Variants X
Filter on Custom Criteria  
Find Binding Sites and Create Fragments  
Find Open Reading Frames  
Find and Model Structure X
Fixed Ploidy Variant Detection  
GO Enrichment Analysis  
Gaussian Statistical Analysis  
Gene Set Test  
Hierarchical Clustering of Samples  
Histone ChIP-Seq  
High-throughput sequencing importers (e.g. Illumina) X
Identify Enriched Variants in Case vs Control Samples X
Identify Graph Threshold Areas  
Identify Known Mutations from Mappings  
Import Expression Data  
Import Primer Pairs  
Import SAM/BAM/CRAM Mapping Files X
Import Tracks from File  
InDels and Structural Variants  
Learn Peak Shape Filter  
Link Variants to 3D Protein Structure X
Low Frequency Variant Detection  
Merge Annotation Tracks X
Merge Overlapping Pairs  
Merge Read Mappings X
Merge Variant Tracks  
Modify Report Type  
Motif Search  
PCA for RNA-Seq  
Pfam Domain Search X
Predict Splice Site Effect  
Principal Component Analysis  
Proportion-based Statistical Analysis  
Proteolytic Cleavage  
QC for Read Mapping  
QC for Targeted Sequencing  
Quantify miRNA  
Remove Duplicate Mapped Reads  
Remove Information from Track X
Remove Variants Present in Control Reads X
Rename Elements  
Rename Sequences in Lists  
Resize Annotations  
Restriction Site Analysis  
Reverse Complement Sequence  
Score Regions  
Secondary Peak Calling  
Score Regions  
Split Sequence List  
Subsample Sequence List  
Transcription Factor ChIP-Seq  
Translate to Protein  
Trim Reads  
Trim Sequences  
Trio Analysis  
Update Sequence Attributes  
Whole Genome Coverage Analysis