tm_calculator_gui
MultiQC
| tm_calculator_gui | MultiQC | |
|---|---|---|
| 1 | 5 | |
| 1 | 1,173 | |
| - | 1.5% | |
| 4.2 | 9.7 | |
| 11 months ago | 4 days ago | |
| Python | JavaScript | |
| MIT License | GNU General Public License v3.0 only |
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tm_calculator_gui
MultiQC
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R pipelines for bulk RNA-seq analyses
fastp + multiQC + Salmon + DESeq2 all some nextflow workflow. It is a good exercise (not complicated) to create the pipeline from scratch the first time to properly understand each tool.
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RNA-seq analysis
I would recommend looking at the pages for FastQC and MultiQC. I run FastQC on my fastq files, then MultiQC on them to collect all that individual data into one report. You can also use MultiQC to analyze the quality of your alignments, at least after using STAR aligner (probably others too, I just have only used STAR aligned).
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How to use MultiQC? I am trying to run it to compile the summary from my FASTQC but I keep getting the "Sample has no read" error.
If that all checks out then I would have to see more of your files in order to help, sorry. Submitting the issue at https://github.com/ewels/MultiQC/issues would help you more
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How can I keep Docker MultiQC from ignoring my large files?
I have seen this Github thread, but it is not applicable for me because I am not running MultiQC natively, I am running a docker version of it in HPC.
What are some alternatives?
dash - Data Apps & Dashboards for Python. No JavaScript Required.
finviz - Unofficial API for finviz.com
Biopython - Official git repository for Biopython (originally converted from CVS)
Sooty - The SOC Analysts all-in-one CLI tool to automate and speed up workflow.
PyBluesky - Cross-platform 2D python game developed with pygame. This is capable of running in windows, linux and android
awesome-single-cell - Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
PDBaser - Protein preparation for MD, made faster and easier !
pyrodigal - Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
Osintgram - Osintgram is a OSINT tool on Instagram. It offers an interactive shell to perform analysis on Instagram account of any users by its nickname
Sniffles - Structural variation caller using third generation sequencing
clinker - Gene cluster comparison figure generator