There are 0 repository under transcriptome-assembly topic.
de novo assembly of RNA-seq data using ABySS
A genome annotation pipeline that use short and long sequencing reads alignments from animal genomes
Official Repository of the Oyster River Protocol for Transcriptome Assembly
Finding putative exons and constructing splicegraphs using Trans-ABySS contigs
Most up-to-date scripts used in the Palumbi lab
A collection of scripts for our PacBio paper
Transcriptome assembly via digital normalization with khmer and Trinity
Material used for a course on transcriptomics, covering transcriptome assembly, transcriptome functional annotation, differential expression analysis, and functional annotation data mining
Scripts and notes related to the manuscript: Stuart KC & Edwards RJ et al. 2022. Transcript- and annotation-guided genome assembly of the European starling. Molecular Ecology Resources, doi.org/10.1101/2021.04.07.438753. † joint first author
Biocore's de novo transcriptome assembly workflow based on Nextflow
These are tutorials on a subset of tools available for processing raw RNAseq data. This if for HISAT2_SAMtools_Stringtie_gffcompare_ballgown pipeline or HISAT2_SAMtools_Stringtie_PrepDEanalysis.py_DESeq2 pipeline
Assembler for multiple RNA-seq samples
A collection of scripts for our PacBio paper
tool for long read transcriptome assembly
A Snakemake pipeline for Illumina Transcriptome Assembly: trimmomatic + dignorm+ trinity
The AugusMake pipeline is a Snakemake-based workflow for generating gene annotations using the Augustus software. AugusMake can perform gene predictions using any combination of the three methods: ab initio, with extrinsic hints, or by training a new species.
A pipeline for the assembly of VAR genes from transcriptome data
MuSTA: Multi-Sample Transcriptome Assembly for long-read isoform sequencing
Assembly of RNA transcriptome, differential expression analysis, identification of lncRNA candidates based on genomic context and protein coding potential.
an investigation into the efficiency of Trinity transcriptome assemblies
Snakemake workflow to de novo assemble transcriptomes with two software, Trinity and Shannon. Imported from my GitLab.
Supplementay Material for publication "Species-specific molecular responses of wild coral reef fishes during a marine heatwave"
a_inornata research project
from trinity assembly to deep learning
Bioinformatics Programming - Transcriptome Assembly
To perform RNA-Seq data analysis and calculate length-scaled transcripts per million (TPM) values using the Salmon tool and the GenomicFeatures package in R.