assembleCas9DualgRNALibraryOligo | Function to facilitate assembly of oligo pool synthesis for... |
calculate_quantilethresperc | Calculate Quantile Threshold Percentages And Counts |
clean_name | Clean Name |
copy_to_global | Copy Variables from One Environment to the Global Environment |
countBlpI | sum total occurrence of sites for a dsDNA sequence (input one... |
countBsmBI | sum total occurrence of sites for a dsDNA sequence (input one... |
countBstXI | sum total occurrence of sites for a dsDNA sequence (input one... |
fasta2df | wrapper for seqinr::read.fasta |
fasta2targetsites | By Chris Hsiung 2022-02-15 |
flowjo2df | Function to read csv file exported from flowjo. The original... |
getBestCRISPickSpacers | Get Best CRISPick Spacers. As written is currently intended... |
getBothStrandsFASTA | by Chris Hsiung, updated 2022-02-15 |
getCas9gRNAoligos_BstxIBlpI | for designing oligos to be cloned into BstxI/BlpI site (e.g.... |
getGammaScore | This function calculates gamma from screen raw read counts |
gethammingdist | function for getting the hamming distance between 2 strings |
getHumanBiomaRt | wrapper for getting ensemblID association with gene symbols... |
getLibraryOligoCas12a6plexgRNA | Function to assemble oligo for pooled synthesis for Cas12a... |
getLibraryOligoCas12aDoublegRNA | Function to assemble oligo for pooled synthesis for Cas12a... |
getLibraryOligoCas12aSinglegRNA | Function to assemble oligo for pooled synthesis for Cas12a... |
getLibraryOligoCas12aTriplegRNA | Function to assemble oligo for pooled synthesis for Cas12a... |
getOligosCas12a4plexgRNAVariantDR_BsmbI | for individually cloning Cas12a 4-plex spacer array into... |
getOligosCas12a5plexgRNAVariantDR_BsmbI | for individually cloning Cas12a 5-plex spacer array into... |
getOligosCas12a6plexgRNAVariantDR_BsmbI | for individually cloning Cas12a 6-plex spacer array into... |
getOligosCas12aDualgRNA_BsmbI | for cloning double spacer into vector with BsmBI site (e.g.... |
getOligosCas12aSinglegRNA_BsmbI | for cloning single spacer into vector with BsmBI site... |
getOligosCas12aTriplegRNALbDR_BsmbI | for individually cloning Cas12a triple spacer array using Lb... |
getOligosCas12aTriplegRNAVariantAsDR_BsmbI | for individually cloning Cas12a triple spacer array into... |
getReverseComplement | Wrapper for Biostring::reverseComplement() |
getSpacersForGeneByRank | for given gene retrieve top rows corresponding to (number of... |
getTargetSites | Function to extract target sites for each sequence sequence... |
plothalfviolin_withthres | Plot Half Violin with Thresholds |
plotscatter_withthres | Scatter Plot with Thresholds and Quadrant Statistics |
plotsplitviolin_withthres | Plot Split Violin with Thresholds |
processFlowjoExportDir | Function to batch process .csv files (containing the... |
propensityscore_multimatch | Propensity Score Matching for Multiple Control Groups |
proptestfordf | Proportion Test for Two Groups in a DataFrame |
removeBadCRISPickSpacers | Function reads CRISPick results as data frame and remove... |
RNAfold2df | Function to parse the output from RNAfold 2.4.18 into data... |
subsample_groupeddf | Subsample a Data Frame |
ttestfordf | t Test for Two Groups in a DataFrame |
wilcoxtestfordf | Wilcoxon Test for Two Groups in a DataFrame |
writedf2fasta | wrapper for seqinr::write.fasta that takes data frame as... |
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