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MOSCA Alternatives
Similar projects and alternatives to MOSCA based on common topics and language
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fastp
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
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InfluxDB
Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.
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GTDBTk
GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.
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metaGEM
:gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data
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SaaSHub
SaaSHub - Software Alternatives and Reviews. SaaSHub helps you find the best software and product alternatives
NOTE:
The number of mentions on this list indicates mentions on common posts plus user suggested alternatives.
Hence, a higher number means a better MOSCA alternative or higher similarity.
MOSCA reviews and mentions
Posts with mentions or reviews of MOSCA.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-05-26.
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What is the best software to use for partial or full data analysis on RNA-Seq. The output I will receive is a FASTQ file.
MOSCA (https://github.com/iquasere/MOSCA) performs all major steps of RNA-Seq analysis in a fully automated workflow, meaning you only have to input your data and it will take care of the rest for you!
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Resources for omics analysis?
MOSCA (https://github.com/iquasere/MOSCA) performs integrated analysis of all of those
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Stuck with RNA seq for ages - please help!!
I developed a script for this type of analysis, it takes as input a count matrix and the underlying conditions (replicates) information, hope it helps
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How to estimate gene transcription levels from metatranscriptomics?
I have developed MOSCA (https://github.com/iquasere/MOSCA) which performs exactly this type of analysis. You can read more about it in the Wiki (https://github.com/iquasere/MOSCA/wiki)
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How to determine gene copies on a metagenome ?
You probably should use some pipeline such as MOSCA (https://github.com/iquasere/MOSCA) and then check on the annotations provided to see which genes contain the same names/functions
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RNA Seq analysis for R
Perhaps this script may help you? https://github.com/iquasere/MOSCA/blob/master/workflow/scripts/de_analysis.R
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Any programs/packages that will allow me to compare cluster annotations obtained from metagenomic data?
You may run MOSCA (https://github.com/iquasere/MOSCA), it performs all major steps of metagenomics analysis. It includes that functional classification you are looking for, since with UPIMAPI (https://github.com/iquasere/UPIMAPI) it annotates with UniProt DB as reference, and obtains information including taxonomy, EC numbers, and even those GOs, and reCOGnizer (https://github.com/iquasere/reCOGnizer), which annotates with CDD DB as reference, and obtains orthologous groups information (COG, Pfam, etc).
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Qurstion about automating trimming process
I also developed a neet preprocessing script, which uses FastQC reports to inform Trimmomatic on what parameters it should use, seems like exactly what you want. Its use is detailed in MOSCA's wiki, and you can obtain the script directly from GitHub here.
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Metatranscriptomics Workflow Questions?
With MOSCA, would I essentially be following all of the steps here for each of my samples? https://github.com/iquasere/MOSCA/wiki/Partial-runs I have some metagenomes that my lab previously obtained from the same site, but am unsure how I'd integrate them here.
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Expression analysis without conditions
I was recently given six RNA-Seq datasets to identify significantly expressed genes in a specific condition - butyrate degradation in the presence of activated carbon. I already did the major steps of metatranscriptomics analysis using MOSCA (https://github.com/iquasere/MOSCA), and was now wondering how can I determine which proteins have an interesting level of expression.
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A note from our sponsor - InfluxDB
www.influxdata.com | 4 May 2024
Stats
Basic MOSCA repo stats
12
32
8.2
3 months ago
iquasere/MOSCA is an open source project licensed under GNU General Public License v3.0 only which is an OSI approved license.
The primary programming language of MOSCA is Python.
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