rnatoy
mag
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rnatoy
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Nextflow RNA-seq pipeline
While running the https://github.com/nextflow-io/rnatoy/blob/master/main.nf pipeline, it throws me an error at line 64 : No such variable: genome. I have tried googling this error but I haven't found anything helpful so far.
mag
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How do you use Termux?
So, I'm a bioinformatician, and currently I am extending my company's data processing pipeline which takes metagenomic sequencing data and performs a number of downstream analyses on it, the results of which are then provided to our customers. Here is an example of such a data processing pipeline: it's a script which orchestrates the execution of a number of tools to get the desired end result. Each of the green bubbles in the flowchart represents a single program which needs to be called specific settings and with data provided to it either by me (as the pipeline input) or from outputs of previous steps in the pipeline.
- Is it possible to assemble a complete bacterial genome using short reads?
What are some alternatives?
rnaseq-nf - A proof of concept of RNAseq pipeline
SqueezeMeta - A complete pipeline for metagenomic analysis
sarek - Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
atlas - Manage your database schema as code
configs - Config files used to define parameters specific to compute environments at different Institutions
rnaseq - RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
spades - SPAdes Genome Assembler
patterns - A curated collection of Nextflow implementation patterns
nextflow - A DSL for data-driven computational pipelines
eager - A fully reproducible and state-of-the-art ancient DNA analysis pipeline