chipstewart
Chip off the old block with a chip on his shoulder. Loads of baggage from the 60's.
Broad InstituteBoston
Pinned Repositories
Breakpointer_fix_sample
consensus_fix_maf
add swissprot_acc_id and non-empty i_t_ALT_F1R2 and i_t_ALT_F2R1 fields to rebc consensus maf
consensus_svs
damage
fake_protein_change
add/remove fake protein_change to mafs for any devious programs that check for protein_change but don't use the information
gatk4_m2_maflite
convert M2 vcf file to a maflite tsv file
Spanner
Spanner2
Development Spanner code
vcfs2maf
Merge M1 and M2 vcfs into a maflite
wig2coverage
Mutect1 wig covered bases file + target bed -> annotated bed + coverage summary
chipstewart's Repositories
chipstewart/Spanner
chipstewart/Spanner2
Development Spanner code
chipstewart/vcfs2maf
Merge M1 and M2 vcfs into a maflite
chipstewart/wig2coverage
Mutect1 wig covered bases file + target bed -> annotated bed + coverage summary
chipstewart/Breakpointer_fix_sample
chipstewart/consensus_fix_maf
add swissprot_acc_id and non-empty i_t_ALT_F1R2 and i_t_ALT_F2R1 fields to rebc consensus maf
chipstewart/consensus_svs
chipstewart/damage
chipstewart/fake_protein_change
add/remove fake protein_change to mafs for any devious programs that check for protein_change but don't use the information
chipstewart/gatk4_m2_maflite
convert M2 vcf file to a maflite tsv file
chipstewart/manta_workflow
Illumina manta workflow for FIrecloud
chipstewart/MutationValidator
chipstewart/OldSpan
Genomic Structural Variation detection tool for paired-read sequence data
chipstewart/REBC_SV_consensus_filter
chipstewart/rebcwgs
REBC WGS pipepette workflow
chipstewart/strelka_workflow
chipstewart/tsvutils
tsv file utility python scripts