MultiQC vs Sniffles

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MultiQC		Sniffles
	Project
5	Mentions	1
1,173	Stars	508
1.5%	Growth	-
9.7	Activity	7.7
4 days ago	Latest Commit	8 days ago
JavaScript	Language	Python
GNU General Public License v3.0 only	License	GNU General Public License v3.0 or later

The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.

MultiQC

Posts with mentions or reviews of MultiQC. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2023-12-09.

R pipelines for bulk RNA-seq analyses
3 projects | /r/bioinformatics | 9 Dec 2023

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.
RNA-seq analysis
1 project | /r/bioinformatics | 16 Nov 2022

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).
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.
2 projects | /r/bioinformatics | 18 Aug 2021

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
How can I keep Docker MultiQC from ignoring my large files?
1 project | /r/bioinformatics | 17 Aug 2021

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.

Sniffles

Posts with mentions or reviews of Sniffles. We have used some of these posts to build our list of alternatives and similar projects.

Is anyone here familiar with the alignment tool Mauve?
1 project | /r/bioinformatics | 13 Mar 2021

Maybe this is interesting for you: https://github.com/fritzsedlazeck/Sniffles

What are some alternatives?

When comparing MultiQC and Sniffles you can also consider the following projects:

finviz - Unofficial API for finviz.com

truvari - Structural variant toolkit for VCFs

Sooty - The SOC Analysts all-in-one CLI tool to automate and speed up workflow.

fastp - An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

awesome-single-cell - Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

manta - Structural variant and indel caller for mapped sequencing data

tm_calculator_gui - Calculates the melting temperature(in Celsius) of a user imported forward and reverse primer based on primer blast default parameters & pcr additives

pipeline-structural-variation - Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data

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

clinker - Gene cluster comparison figure generator