Tools for working with genomic and high throughput sequencing data. bioinformatics scala genomics ngs umi analyzing-genomic-data fgbio molecular-indexes Updated Sep 23, 2024 Scala msk-access / bam_collapsing Star 0 Code Issues Pull requests Workflow for collapsing of standard binary alignment ...
test_data['homo_sapiens']['illumina']['test_umi_2_fastq_gz'], checkIfExists: true) file(params.modules_testdata_base_path + 'genomics/homo_sapiens/illumina/fastq/test.umi_1.fastq.gz', checkIfExists: true), file(params.modules_testdata_base_path + 'genomics/homo_sapiens/illumina/fastq...
Annotate/Extract Umis from read-level data:FastqToBam,AnnotateBamWithUmis,ExtractUmisFromBam, andCopyUmiFromReadName. Manipulate read-level data containing Umis:CorrectUmis,GroupReadsByUmi,CallMolecularConsensusReads,CallDuplexConsensusReads, andFilterConsensusReads. ...