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reneshbedre/bioinfokit: Bioinformatics data analysis and visualization toolkit

Authors: Renesh Bedre;

reneshbedre/bioinfokit: Bioinformatics data analysis and visualization toolkit

Abstract

v0.9 has the following updates and changes (July 28, 2020) gene expression raw count normalization class added as 'analys.norm' CPM and RPKM normalization function added under 'analys.norm' class Sugarcane gene expression dataset added (Bedre et al., 2019) In volcano, 'ma', and involcano plots, checks for lfc_thr, counts, and pv_thr added legend labels, position, and figname parameters added in volcano plot utility to check the non-numeric values added for ma, volcano and involcano plotlegend parameter added to ma the parameter for log fold change threshold lines added in ma plot legend labels, position, and figname parameters added in ma plot tsneplot added for t-SNE visualization in bardot drop NA value function added to ignore missing values to plot dots scRNA-seq dataset added (PBMC and Arabidopsis root cells) fasta_reader and rev_com moved to newly created fasta class tsneplot and vcf_anot initialized for future release more parameters added in biplot (cluster coloring, datapoints) figname added in hmap ma function updated for absolute expression counts svg figures added pca function will be deprecated in future release 2D and 3D loadings plot, biplot and scree plot functions added under the cluster class for PCA programmatic access to iris and cotton dataset added pca function will be deprecated in future release

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
views
OpenAIRE UsageCountsViews provided by UsageCounts
downloads
OpenAIRE UsageCountsDownloads provided by UsageCounts
42
Top 10%
Top 10%
Top 1%
146
4