bin/jaffa-assembly
bin/jaffa-direct
bin/jaffa-hybrid
share/jaffa-2.5-0/COPYING
share/jaffa-2.5-0/Dockerfile
share/jaffa-2.5-0/JAFFAL.groovy
share/jaffa-2.5-0/JAFFA_assembly.groovy
share/jaffa-2.5-0/JAFFA_direct.groovy
share/jaffa-2.5-0/JAFFA_hybrid.groovy
share/jaffa-2.5-0/JAFFA_stages.groovy
share/jaffa-2.5-0/LICENSE
share/jaffa-2.5-0/README
share/jaffa-2.5-0/README.md
share/jaffa-2.5-0/assemble.sh
share/jaffa-2.5-0/build_env_setup.sh
share/jaffa-2.5-0/conda_build.sh
share/jaffa-2.5-0/cwl/converter.cwl
share/jaffa-2.5-0/cwl/jaffa.cwl
share/jaffa-2.5-0/cwl/smcFusion-jaffa-workflow.cwl
share/jaffa-2.5-0/cwl/tar.cwl
share/jaffa-2.5-0/cwl/twoBitToFa.cwl
share/jaffa-2.5-0/inclusion_and_exclusion_lists/GTEX_by_class.txt
share/jaffa-2.5-0/inclusion_and_exclusion_lists/cosmic_genes.txt
share/jaffa-2.5-0/inclusion_and_exclusion_lists/known_fusions_cosmic.txt
share/jaffa-2.5-0/inclusion_and_exclusion_lists/known_fusions_gtex.txt
share/jaffa-2.5-0/inclusion_and_exclusion_lists/known_fusions_mitelman.txt
share/jaffa-2.5-0/install_linux64.sh
share/jaffa-2.5-0/jaffa-assembly
share/jaffa-2.5-0/jaffa-direct
share/jaffa-2.5-0/jaffa-hybrid
share/jaffa-2.5-0/metadata_conda_debug.yaml
share/jaffa-2.5-0/prepare_reference.sh
share/jaffa-2.5-0/scripts/get_cell_barcodes_by_fusion.bash
share/jaffa-2.5-0/scripts/get_fusion_seqs.bash
share/jaffa-2.5-0/scripts/mitelman_db.sql
share/jaffa-2.5-0/src/compile_results.c++
share/jaffa-2.5-0/src/extract_seq_from_fasta.c++
share/jaffa-2.5-0/src/make_3_gene_fusion_table.c++
share/jaffa-2.5-0/src/make_count_table.c++
share/jaffa-2.5-0/src/make_final_table.c++
share/jaffa-2.5-0/src/make_simple_read_table.c++
share/jaffa-2.5-0/src/make_simple_read_table_assembly.c++
share/jaffa-2.5-0/src/pid-error.patch
share/jaffa-2.5-0/src/process_transcriptome_align_table.c++
share/jaffa-2.5-0/src/split_fusion_reads.c++
