DeepConsensus uses gap-aware sequence transformers to correct errors in Pacific Biosciences (PacBio) Circular Consensus Sequencing (CCS) data.
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Oct 9, 2024 - Python
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long-read-sequencing
Here are 72 public repositories matching this topic...
Assembly and binning of metagenomes
workflow bioinformatics nanopore pipeline annotation nextflow assembly metagenomics binning metagenomes nanopore-sequencing nf-core long-read-sequencing
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Dec 20, 2024 - Nextflow
Assembly and intrahost/low-frequency variant calling for viral samples
workflow nanopore virus pipeline nextflow assembly metagenomics variant-calling illumina oxford-nanopore amplicon viral ont nf-core long-read-sequencing artic covid-19 covid19 sars-cov-2
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Dec 20, 2024 - Nextflow
ClairS - a deep-learning method for long-read somatic small variant calling
bioinformatics deep-learning nanopore genomics somatic-variants haplotypes pacbio somatic-mutations illumina indels phasing snvs long-reads ont long-read-sequencing short-reads
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Dec 1, 2024 - Python
Graph-based assembly phasing
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Nov 1, 2024 - Python
Long-read splice alignment with high accuracy
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Sep 26, 2024 - Python
ClairS-TO - a deep-learning method for tumor-only somatic variant calling
bioinformatics deep-learning nanopore genomics somatic-variants variants pacbio variant-calling somatic-mutations illumina snvs long-reads ont long-read-sequencing tumors tumor-only
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Dec 2, 2024 - Python
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Mar 19, 2023 - Rust
Fast and space-efficient taxonomic classification of long reads
bioinformatics taxonomy metagenomics long-read microbiome kmer em-algorithm taxonomic-classification refseq bioinf long-read-sequencing xor-filter taxonomic-profiling syncmer pseudo-alignment interleaved-xor-filter
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Oct 30, 2024 - C++
Single cell Nanopore sequencing data for Genotype and Phenotype
gene-expression single-cell isoforms demultiplexing cell-barcode rna-seq-pipeline single-nucleotide-variation long-read-sequencing nanopore-analysis-pipeline umi-curation
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Sep 5, 2024 - Python
A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.
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Jan 18, 2023 - Python
A pipeline for high-quality bacterial genome construction using ONT sequencing
bioinformatics-pipeline microbial-genomics oxford-nanopore genome-assembly long-read-sequencing nanopore-analysis-pipeline
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Sep 22, 2022 - HTML
Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes
bioinformatics nanopore metagenomics pacbio microbial-genomics microbiome long-read-sequencing metagenome-assembled-genomes
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Jun 21, 2024 - Python
Linear-time de novo Long Read Assembler
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Dec 2, 2024 - C++
scisorseqr is an R-package for processing of single-cell long read data and analyzing differential isoform expression across any two conditions
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Mar 9, 2023 - R
Efficient and accurate pathogenicity prediction for coding and regulatory structural variants in long-read genome sequencing
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Jun 28, 2024 - Java
Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
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Dec 18, 2024 - Python
Tool to annotate outfiles from ExpansionHunter and TRGT with the pathologic implications of the repeat
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Nov 25, 2024 - Python
NANOME pipeline (Nanopore long-read sequencing data consensus DNA methylation detection)
bioinformatics pipeline dna-methylation nanopore-sequencing long-read-sequencing methylation-calling
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Mar 16, 2024 - Python
An algorithm for centromere assembly using long error-prone reads
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May 25, 2021 - Python
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