amarinderthind / decontaminer
DecontaMiner is a tool designed and developed to investigate the presence of contaminating sequences in unmapped NGS data. It can suggest the presence of contaminating organisms in sequenced samples, that might derive either from laboratory contamination or from their biological source, and in both cases can be considered as worthy of further in…
☆9Updated last month
Related projects ⓘ
Alternatives and complementary repositories for decontaminer
- SingleCell Nanopore sequencing data analysis☆52Updated last month
- An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.☆53Updated last month
- Long-read Isoform Quantification and Analysis☆39Updated 3 months ago
- Flexible and efficient parsing, interpreting and editing of sequencing reads☆41Updated last month
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆56Updated last month
- A Python library to visualize and analyze long-read transcriptomes☆57Updated 8 months ago
- GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools☆47Updated 4 years ago
- IDR☆30Updated last year
- Error correction of ONT transcript reads☆58Updated last year
- Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)☆41Updated 6 months ago
- ENCODE long read RNA-seq pipeline☆44Updated last year
- optimization of ribosome P-site positioning in ribosome profiling data☆45Updated 10 months ago
- Annotation and segmentation of MAS-seq data☆20Updated last year
- The Flexible Demultiplexer☆26Updated 2 months ago
- ☆19Updated last year
- Allo: a multi-mapped read rescue strategy for gene regulatory analyses☆23Updated 2 months ago
- Master of Pores 2☆23Updated last year
- viGEN - A bioinformatics pipeline for the exploration of viral RNA in human NGS data☆27Updated last month
- For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…☆33Updated last year
- Prediction of RNA modifications and their stoichiometry from per-read features: current intensity, dwell time and trace (Begik*, Lucas* e…☆23Updated last year
- ☆23Updated 3 months ago
- Modify existing reference fasta and gff3/gtf files to include a new sequence☆30Updated this week
- ☆23Updated 3 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆36Updated 2 years ago
- processing 10x genomics reads☆24Updated 5 years ago
- Tutorial Website☆53Updated 3 years ago
- Splice junction analysis and filtering from BAM files☆39Updated 2 years ago
- RPKM for RNASeq counts☆16Updated 4 years ago
- RNA-seq workflow: differential transcript usage☆20Updated last year