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htseq-count

Here are 8 public repositories matching this topic...

hanielcedraz / BAQCOM

Quality Control, Mapping and Reads Count for RNA-Seq Analysis

bioinformatics quality-control mapping bioinformatics-pipeline multiqc star hisat2 rna-seq-analysis featurecounts rna-seq-mapping fastqc rna-seq-pipeline htseq-count rna-seq-qc rnaseqpipeline trimmomatic rna-seq-aligner

Updated Mar 29, 2022
R

datasnakes / htseq-count-cluster

A cli for running multiple qsub jobs with HTSeq's htseq-count on a cluster.

cli cluster sge rnaseq htseq htseq-count htseq-count-cluster

Updated Feb 25, 2022
Python

wucc009 / Platelet_transcriptome_fastq_data_processing

血小板转录组fastq数据处理

linux r rpm geo ensemble star tpm fastq bwa sra aria2c ena fastqc htseq-count fastp trimmomatic ciri2 circbank

Updated May 31, 2023
Shell

gih0004 / RNA_seq_pipeline

RNA seq pipeline designed for paired end reads using HTSEQ for producing files needed for visualizing transcriptomic data with DESEQ2

rna-seq rna-seq-analysis htseq rna-seq-pipeline htseq-count

Updated Oct 16, 2023
Shell

Pinky-cloud224 / snakemake_workflow_rna_seq_data_analysis

config rna-seq jupyter-notebook conda python3 multiqc tpm salmon kallisto featurecounts paired-end fastq-files cutadapt fastqc htseq-count snakemake-workflow

Updated Oct 20, 2022
Jupyter Notebook

Manninm / MiKTMCSnakemakePipeline

Attempt at snakemake pipeline. Pyflow was forked from https://github.com/crazyhottom but the Snakefile infrastructure and rule calling was inspired by https://github.com/snakemake-workflows

snakemake pipeline star slurm-cluster htseq-count stringtie ballgown fastqs

Updated Oct 27, 2020
R

bixBeta / xcode.beta

SLURM job temps @UAlbany

bioinformatics sbatch slurm alignment star htseq bioinformatics-scripts ualbany htseq-count

Updated May 25, 2018
Shell

mattgalbraith / htseq2-docker-singularity

Build Docker container for HTSeq and (optionally) convert to Apptainer/Singularity

docker bioinformatics genomics sequencing singularity htseq htseq-count apptainer

Updated Feb 17, 2023
Dockerfile

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