Bioinformatics data analysis and visualization toolkit

• analys.gff.gff_to_gtf function updated to handle dot value for phase in CDS features
• `Breast Cancer Wisconsin (Diagnostic) Data Set added
• visuz.stat.roc function added for visualizing the ROC
• bartlett and levene function added to analys.stat class for checking the ANOVA assumptions
  for datasets in stacked format
• tukey_hsd function updated for grouping order
• Pandas series added as input for fasta.extract_seq function
• extract_seq function moved to fasta class
• extract_seq function deprecated from analys
• visualization for single and multiple statistical bar charts updated for future releases
• Tukey HSD test updated for interaction effect. Pairwise comparison for interaction effect can be calculated.
• gff_to_gtf function updated for the GFF3 file for non-coding RNA transcripts. GFF3 files with non-coding transcripts
  (e.g. from miRBase GFF3) can be converted to GTF
• genFam enrichment analysis function added (bioinfokit.analys.genfam.fam_enrich)
• genfam test added
• Tukey HSD test added to perform multiple pairwise comparisons (bioinfokit.analys.stat.tukey_hsd)
• new option mrna_feature_name added in analys.gff.gff_to_gtf if the name of the feature (column 3 of GFF3 file) of
  protein coding mRNA is other than 'mRNA' or 'transcript' (e.g. some GFF3 file has this feature named as
  protein_coding_gene )
• dim option added to visuz.cluster.screeplot, visuz.cluster.pcaplot and visuz.cluster.biplot to control the
  figure size
• seqcov moved to fastq class
• sra_db function added under fastq class for batch download of FASTQ files
  from NCBI SRA database
• In t-test, the one sample t and paired t-test added
• Two sample t-test switched to class based method
• t-test function name changed to ttest from ttsam
• programmatic access to chi-squared independence test dataset added
• boxplot removed from t-test
• 'adjustText' module added in setup.py (issue #12)
• In chi-squared test, the sum of probabilities is rounded to 10 for exact sum in case of floats
• chi-squared goodness of fit test added under the stat.chisq
• chi-squared independence test updated for output as class attributes and mosaic plot removed
• mergevcf renamed to concatvcf to keep with conventional naming (issue # 9)
• programmatic access to chi-squared independence test dataset added
• marker.vcf_anot function updated for tab-delimited text output
• The error message for volcano, inverted volcano, and MA plot updated
  when there are no significant or non-significant genes (issue # 7)
• The vcf_anot function output updated for strand information
• The manhatten plot updated to add the lables in sorted order for numerical strings
• The manhatten plot updated to add figname option
• TPM normalization function added