Category:Algorithms

A

• Add 2 dimensional annotation to list of files user Kantale
• Add 2d annotation to list of files user Kantale
• Add polyphen annotation to SNPs from SeattleSeqAnnotation outputs user Kantale
• Align VCF to reference
• Align VCF to reference user Kantale
• All equal user Kantale
• Allele frequencies from VCF user Kantale
• Allelic R2 from minimac probs user Kantale
• Analyze beagle imputation Marchini user Kantale
• Analyze VCF diff filename user Kantale
• Andrews curves
• Andrews curves user Kantale
• Annotatae TAB file via ANNOVAR user Kantale
• Annotatae variant list file via SeattleSeqAnnotation user Kantale
• Annotate list of chromosome position files with GO from BioMart Ensembl user Kantale
• Annotate TAB filename via ANNOVAR user Kantale
• Annotate variant list file via SeattleSeqAnnotation user Kantale
• Annotate VCF file via ANNOVAR user Kantale
• Annotate VCF file with GO user Kantale
• Annotate VCF file with GO user Test
• Annotate VCF filename via ANNOVAR user Kantale
• Annotate VCF filename with GO user Kantale
• ANNOVAR annotation user Kantale
• ANNOVAR Annotation user Kantale
• Argmax user Kantale
• Assembly impute2 gprobs bins user Kantale
• AWS user Kantale

B

• brainfuck
• Brainfuck user Kantale
• bresenhamline
• bresenhamline user Kantale

C

• Check if directory exists user Kantale
• Check if file exists user Kantale
• Check if many values are equal user Kantale
• Class user Kantale
• Combinations user Kantale
• Comma separated string to list int user Kantale
• Comma string to list string user Kantale
• Compare 2 TriTyper datasets user Kantale
• Compare 2 VCF files user Kantale
• Compare list of VCF files per 2 user Kantale
• Compare locus user Kantale
• Compare reference with TriTyper study user Kantale
• Compute R2 from impute2 gprobs user Kantale
• Concordance between bfiles user Kantale
• Concordance between VCF and BED user Kantale
• Concordance between VCF user Kantale
• Concordance TPED user Kantale
• Constants millipede user Kantale
• Constants millipede user Patrick
• Constants user Kantale
• Constants user Patrick
• Convert beagle gprobs to PEDMAP beagle user Kantale
• Convert beagle markers to MAP user Kantale
• Convert beagle to impute2 reference user Kantale
• Convert beagle to PEDMAP user Kantale
• Convert beagle to TPED user Kantale
• Convert beagle to VCF user Kantale
• Convert BED BIM FAM to PEDMAP user Kantale
• Convert bed to bim user Kantale
• Convert bim to bed user Kantale
• convert dosage plink to SNPTEST gen user Kantale
• Convert FASTQ to FASTA user TimBooth
• Convert file from DOS to Unix user Kantale
• Convert from beagle to TriTyper user Kantale
• Convert from mach to impute2 user Kantale
• Convert from mach to PEDMAP user Kantale

C cont.

• convert from minimac prob to plink
• convert from minimac prob to plink user Kantale
• Convert from VCF to mach user Kantale
• Convert impute2 gprobs to beagle gprobs user Kantale
• Convert impute2 gprobs to PEDMAP beagle user Kantale
• Convert impute2 to beagle user Joman
• Convert impute2 to beagle user Kantale
• Convert impute2 to PEDMAP
• Convert impute2 to PEDMAP user Kantale
• Convert impute2 to TPED user Kantale
• Convert impute2 to VCF user Kantale
• Convert list beagle markers to MAP user Kantale
• Convert list beagle to PEDMAP user Kantale
• Convert list impute2 to beagle user Kantale
• Convert list impute2 to PEDMAP user Kantale
• Convert list MAPs to Beagle markers user Kantale
• Convert list MAPs to DATs user Kantale
• Convert list of PEDMAP files to GEN SAMPLE user Kantale
• Convert list of PEDMAP to GEN SAMPLE user Kantale
• Convert list PEDMAP to beagle markers user Kantale
• Convert MAP to Beagle markers user Chapmanb
• Convert MAP to Beagle markers user Kantale
• Convert MAP to DAT user Kantale
• Convert PED to TFAM user Kantale
• Convert PEDDAT to beagle user Kantale
• Convert PEDMAP to beagle markers user Kantale
• Convert PEDMAP to beagle user Kantale
• Convert PEDMAP to GEN SAMPLE user Kantale
• Convert PEDMAP to impute2 genotype user Kantale
• Convert PEDMAP to impute2 haps legend user JohnDoe
• Convert PEDMAP to impute2 haps legend user Kantale
• Convert PEDMAP to PHASE user Kantale
• Convert PEDMAP to TriTyper user Kantale
• convert PEDMAP to VCF
• Convert PEDMAP to VCF user Kantale
• convert plink to Merlin
• convert plink to Merlin user Kantale
• Convert plink to VCF user Kantale
• Convert plot to HTML
• Convert plot to HTML user Kantale
• Convert PyPedia pipeline to molgenis compute model user Kantale
• Convert string of filenames to list of strings user Kantale
• Convert tab file to VCF user Kantale
• Convert TAB to GFF3 user Kantale
• Convert TPED to impute2 hap legend user Kantale
• Convert TPED to VCF user Kantale
• Convert TriTyper to PEDMAP user Kantale
• Convert VCF file to TAB user Kantale
• Convert VCF from 33 to 40 user Kantale
• Convert VCF to beagle unphased trio user Kantale
• Convert VCF to beagle user Kantale
• Convert VCF to PEDMAP user Kantale
• Convert VCF to TAB user Kantale
• Copy scripts in different projects user Gburet
• Copy user Kantale
• Correlation user Kantale
• Covariance user Kantale
• Create annotation files from xapian index from files user Kantale
• Create annotation from 2 files with 2 common columns user Kantale
• Create batches from TriTyper user Kantale
• Create GO annotation ffrom BioMart Ensembl user Kantale
• Create html from directory user Kantale
• Create matlab plot user Kantale
• Create PyPedia script user Kantale
• Create random subset of beagle user Kantale
• Create random subset of impute2 user Kantale
• Create samples from impute2 gprobs user Kantale

C cont.

• Create xapian index from list of TAB files user Kantale

D

• Default VCF header user Kantale
• Delete filename user Kantale
• Directory exists user Kantale
• Divide PEDMAP to chromosome user Kantale
• Divide PEDMAP to chromosomes user Kantale
• Dosage hap legend user Kantale
• Draw canvas user Kantale
• Draw face user Kantale
• Draw user Kantale

E

• Edit PEDMAP user Kantale
• Eulers totient user Admin
• Eulers totient user Kantale
• Evaluate list user Kantale
• Execute article in PBS user Kantale
• Execute command user Kantale
• Execute commands in PBS user Kantale
• Execute commands user Kantale
• Execute in PBS user Kantale
• Execute scp user Kantale
• Extract list of sheets from excel to text user Kantale

F

• factors user Kantale
• Fetch url user Kantale
• FIFO process pool user Kantale
• File exists user Kantale
• Filter file according to line index user Kantale
• Fixed point user JohnDoe
• Fixed point user Kantale
• Foo user JohnDoe
• Foo user Kantale
• Foo user Smithhallam
• Foo user ZhuangZi
• From impute2 to beagle user Kantale
• From PYP parameter to expr user Kantale
• From PYP parameter to list of int user Kantale
• From PYP parameter to list of string user Kantale
• From PYP parameters to list of integers user Kantale

G

• Genetic liftover user Kantale
• Get basename of filename user Kantale
• Get contents of a directory user Kantale
• Get current directory user Kantale
• Get dicionary of TAB files with 1 key and 1 value user Kantale
• Get dictiionary of TAB files with 1 key 1 list of values user Kantale
• Get dictionary of TAB files with 2 keys 1 list of values user Kantale
• Get dictionary of TAB files with 2 keys and 1 value user Kantale
• Get directory of filename user Kantale
• Get extension of filename user Kantale
• Get IP
• Get IP user Kantale
• Get IP user Tselios
• Get length of chromosomes build36 user Kantale
• Get length of chromosomes build37 user Kantale
• Get links from pypedia article user Kantale
• Get links to pypedia article user Kantale
• Get parameters from PyPedia documentation user Kantale
• Get path of filename user Kantale
• Get PBS jobs user Kantale
• Get polyphen annotation from SeattleSeqAnnotation with priority duplicate resolution user Kantale
• Get positions from MAP File user Kantale
• Get rsIDs from MAP File user Kantale
• Get sample names from vcf user Kantale
• Get SNP alleles user Kantale
• Get system architecture user Kantale
• Goo user JohnDoe
• Goo user Kantale
• Google dictionary