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| Name | Last modified | Size | Description |
|---|---|---|---|---|
| Parent Directory | - | ||
| 2Dhistogram.py | 2022-02-17 19:13 | 5.8K | |
| 3D/ | 2017-09-11 21:48 | - | |
| ATAC/ | 2020-04-21 06:40 | - | |
| AddXStoBAM.py | 2013-02-05 09:21 | 5.1K | |
| AijPrint.py | 2018-11-25 10:54 | 1.2K | |
| AverageColumns.py | 2019-08-16 09:53 | 2.1K | |
| AverageGeneProfileFromWig.py | 2019-02-09 12:50 | 33K | |
| AverageMedianRegionLengthNoNs.py | 2015-12-16 21:49 | 2.1K | |
| BAMFragmentCount.py | 2020-07-28 20:49 | 9.6K | |
| BAMPErandomize.py | 2023-09-16 22:03 | 3.1K | |
| BAMPseudoReps-V2.py | 2018-05-10 19:51 | 2.0K | |
| BAMPseudoReps.py | 2018-04-08 16:16 | 1.1K | |
| BAMRead1or2.py | 2014-03-19 04:45 | 2.1K | |
| BAMToReadPosPerChromosome.py | 2013-02-23 20:52 | 7.3K | |
| BAMalignedReads.py | 2014-05-27 18:38 | 1.5K | |
| BAMalignmentsPerChromosome.py | 2012-05-04 00:28 | 2.7K | |
| BAMclippingStats.py | 2020-03-03 15:28 | 3.0K | |
| BAMtoFASTQ.py | 2017-05-10 19:41 | 16K | |
| BPCompostionFasta.py | 2015-01-15 21:11 | 1.4K | |
| BPNet/ | 2019-05-17 21:20 | - | |
| Bi188/ | 2013-05-10 18:42 | - | |
| CDSGTF.py | 2015-04-17 09:17 | 1.0K | |
| CLWblocks.py | 2015-02-16 07:04 | 1.9K | |
| CRISPR/ | 2019-03-18 07:17 | - | |
| CSVtoTSV.py | 2021-01-03 11:11 | 777 | |
| ChIA-PET/ | 2013-03-08 22:53 | - | |
| ChIP-QC-simulation/ | 2015-10-11 03:51 | - | |
| ChIP-exo/ | 2018-09-13 22:47 | - | |
| ChIP/ | 2025-05-28 10:25 | - | |
| ComplexityFromBAM.py | 2012-02-18 06:27 | 4.7K | |
| ConsensusSequence.py | 2015-11-12 02:34 | 3.1K | |
| CorrelationRank.py | 2017-08-24 01:27 | 2.6K | |
| CorrelationTable.py | 2019-08-16 05:02 | 2.2K | |
| DESeq/ | 2018-11-20 16:58 | - | |
| DNN/ | 2019-07-08 17:35 | - | |
| DeDupFastq.py | 2014-11-19 15:16 | 2.2K | |
| EnergyCost/ | 2017-04-17 22:44 | - | |
| FLAG.py | 2019-06-09 21:27 | 2.6K | |
| FilesToVennSet.py | 2016-08-06 16:04 | 1.7K | |
| FilesToVennSetFromBinaryTable.py | 2018-01-23 07:50 | 2.0K | |
| FillterAlignmentSites.py | 2015-10-12 15:53 | 2.9K | |
| GAN-motifs/ | 2019-08-23 18:41 | - | |
| GCPrimerSites-py3.py | 2025-04-10 19:34 | 4.1K | |
| GCPrimerSites.py | 2025-04-16 17:58 | 5.1K | |
| GCcontentaroundcoordinates.py | 2010-09-03 19:42 | 2.7K | |
| GOenrichment-enrichment.py | 2009-05-25 22:23 | 2.0K | |
| GOfuncAssCrossReference.py | 2013-12-03 22:52 | 2.5K | |
| GTFExonicBasePairs.py | 2013-05-02 00:59 | 2.1K | |
| GenBankToGTF.py | 2015-06-08 21:25 | 13K | |
| GeorgiScripts/ | 2015-03-28 17:49 | - | |
| HAsequencetofasta.py | 2010-08-31 18:48 | 1.2K | |
| Hi-C/ | 2025-02-24 15:06 | - | |
| IDRMACScommands.py | 2021-03-28 05:53 | 11K | |
| IDRSPPcommands.py | 2015-11-13 01:01 | 13K | |
| InDelFrequency.py | 2022-07-30 11:14 | 4.6K | |
| JSsp.py | 2012-03-27 18:47 | 3.7K | |
| KDE.py | 2018-07-16 20:58 | 1.6K | |
| KMerCounts.py | 2020-07-26 21:40 | 3.8K | |
| KaKsCalculator_aggregator.py | 2016-03-17 22:31 | 7.6K | |
| MACtoUnixNewLineas.py | 2014-11-15 12:09 | 667 | |
| MMMESTP-transcript-protein-combine.py | 2015-04-28 15:51 | 2.0K | |
| MakeRandomTSSMatrix.py | 2009-09-21 23:42 | 3.4K | |
| MakeTSSMatrix.py | 2010-01-22 05:06 | 9.9K | |
| MatrixToCDT.py | 2017-09-04 05:11 | 3.6K | |
| MergeBAMPerChr.py | 2013-12-17 05:05 | 1.4K | |
| MultiCoreTSNE-simple.py | 2018-10-19 06:43 | 2.0K | |
| MultiCoreTSNE.py | 2018-03-07 03:08 | 2.5K | |
| MultipleBEDsToWig.py | 2019-02-11 06:18 | 3.1K | |
| MultipleGTFsToWig.py | 2013-05-30 09:30 | 5.3K | |
| NearestGenesToTranscriptGTF.py | 2012-10-21 01:49 | 4.9K | |
| NearestTSSfromGTF.py | 2017-04-21 02:28 | 6.6K | |
| NeighboringMotifs.py | 2017-05-10 07:26 | 4.6K | |
| NoCoverageRegions.py | 2012-10-08 22:47 | 4.1K | |
| OMA/ | 2017-04-17 22:47 | - | |
| PCA.py | 2019-10-09 20:28 | 4.9K | |
| PEFastqToTabDelimited-reverse.py | 2019-02-13 14:59 | 2.3K | |
| PEFastqToTabDelimited.py | 2017-07-16 10:49 | 4.0K | |
| PEInsertDistFromBAM-unsorted.py | 2019-01-18 23:19 | 3.1K | |
| PEInsertDistFromBAM.py | 2019-05-14 18:23 | 9.8K | |
| PWM+logo_from_fasta.py | 2013-11-14 16:18 | 2.9K | |
| PWMCountsToFraction.py | 2017-05-09 19:20 | 1.3K | |
| PWMmatches.py | 2018-04-20 07:44 | 5.4K | |
| PseudoReplicates.py | 2013-09-19 06:30 | 3.8K | |
| QSUB.py | 2015-01-29 04:49 | 1.1K | |
| RNA/ | 2020-02-23 14:08 | - | |
| RNA_sumbissions_code/ | 2011-09-01 15:05 | - | |
| ROC.py | 2017-01-17 18:05 | 3.4K | |
| ResidueConservation.py | 2015-07-18 04:16 | 2.5K | |
| ResidueConservationCorrelation.py | 2015-07-17 17:10 | 4.6K | |
| SAMchromosomeOrder.py | 2012-06-26 17:05 | 1.4K | |
| SAMstats-V2-coordinate-sorted.py | 2019-06-19 05:42 | 13K | |
| SAMstats-V2.py | 2019-06-20 01:43 | 19K | |
| SAMstats-table.py | 2018-05-12 04:28 | 1.8K | |
| SAMstats.py | 2019-06-18 22:32 | 16K | |
| SLURM-py3.py | 2023-02-08 15:04 | 2.8K | |
| SLURM.py | 2023-09-18 17:30 | 2.9K | |
| SOLiD2FASTQ.py | 2018-08-14 16:12 | 2.7K | |
| SOM/ | 2012-06-27 03:03 | - | |
| STARR-seq/ | 2018-06-25 08:43 | - | |
| Sailfish/ | 2013-11-29 20:13 | - | |
| SequenceCompositionPerChr.py | 2015-04-29 02:32 | 1.5K | |
| SequenceSimilarityMatrix.py | 2016-03-18 14:24 | 2.9K | |
| SequenceToMot.py | 2015-02-27 03:26 | 2.1K | |
| StringKmersMap.py | 2013-07-30 03:03 | 2.3K | |
| SumColumns.py | 2019-01-05 13:11 | 3.3K | |
| SumColumns2.py | 2019-08-27 04:42 | 1.8K | |
| SumDups.py | 2019-03-29 13:13 | 3.5K | |
| TSScounts.py | 2009-09-29 02:11 | 4.1K | |
| TSVtoCSV.py | 2018-02-13 16:11 | 777 | |
| TabDelimitedFileToFasta.py | 2012-10-15 13:04 | 1.4K | |
| UMAP.py | 2022-10-26 03:29 | 4.3K | |
| UTRbiasfromcistematic.py | 2009-08-27 02:58 | 5.8K | |
| UnitMeanZeroVariance.py | 2017-03-03 02:13 | 3.1K | |
| UpdateUTRs.py | 2015-06-01 15:48 | 11K | |
| V-plot-individual.py | 2019-07-08 23:33 | 6.7K | |
| V-plot.py | 2018-04-12 02:18 | 6.0K | |
| VCF-vs-regions.py | 2013-03-24 21:53 | 1.7K | |
| VarStepWigToBedGraph.py | 2014-07-22 23:03 | 1.5K | |
| WigCollapseBlocks.py | 2018-01-30 23:37 | 2.3K | |
| WigMergeOverlapping.py | 2018-02-04 14:05 | 2.5K | |
| WigRegionsFraction.py | 2014-07-21 19:54 | 2.8K | |
| WigSmooth.py | 2019-07-09 21:13 | 3.2K | |
| XYsmoothen.py | 2017-05-25 21:39 | 1.3K | |
| addFields.py | 2012-03-27 18:53 | 2.1K | |
| all-vs-all-groups.py | 2024-01-23 02:57 | 1.7K | |
| assembly/ | 2022-04-09 12:24 | - | |
| averageBigWigSignal.py | 2021-06-09 07:25 | 1.7K | |
| averageWigSignal.py | 2012-07-16 16:14 | 3.4K | |
| bamPreprocessing.py | 2012-06-18 03:01 | 4.2K | |
| barcodedFastqSplit2.py | 2011-09-18 09:11 | 3.0K | |
| barcodedFastqSplitSeparateFiles.py | 2011-09-18 09:11 | 3.4K | |
| basePairComposition-tab.py | 2021-08-02 20:54 | 1.2K | |
| basePairComposition.py | 2011-05-25 09:05 | 1.2K | |
| bed6tobedextendedreads.py | 2009-07-09 21:52 | 2.7K | |
| bedComplement.py | 2025-03-18 07:00 | 5.2K | |
| bedExtend.py | 2019-04-05 09:03 | 2.9K | |
| bedGroupLength.py | 2013-01-07 00:57 | 1.8K | |
| bedMiddlePos.py | 2014-09-19 10:23 | 1.1K | |
| bedPartition.py | 2021-06-14 08:47 | 1.3K | |
| bedRPKMfromBAM.py | 2025-01-23 18:43 | 18K | |
| bedRPKMfromBigWig.py | 2018-12-03 17:42 | 1.5K | |
| bedRPKMfromwig.py | 2025-05-22 01:44 | 5.7K | |
| bedRawReadCountsBAM.py | 2024-03-27 21:45 | 6.2K | |
| bedSequence.py | 2020-07-28 21:21 | 5.0K | |
| bed_fraction_of_genome.py | 2013-05-02 01:16 | 1.9K | |
| bed_gene_clearance.py | 2011-03-26 16:11 | 2.2K | |
| bed_to_hts.py | 2014-12-30 18:48 | 1.2K | |
| bedtoRPKM.py | 2012-07-09 16:23 | 3.9K | |
| bedtoSingleField-reverse.py | 2021-07-12 17:10 | 1.6K | |
| bedtoSingleField.py | 2018-04-07 18:19 | 1.4K | |
| bedtobed4.py | 2010-03-10 12:12 | 946 | |
| bedtobed6.py | 2013-03-24 09:59 | 1.0K | |
| bigWigBPCombine.py | 2019-08-15 22:03 | 2.5K | |
| bigWigToSmoothWig.py | 2019-07-09 17:39 | 1.6K | |
| bisulfite/ | 2026-02-17 20:32 | - | |
| bowtietobed.py | 2010-04-05 21:21 | 2.6K | |
| bowtietogff.py | 2010-05-30 19:10 | 1.1K | |
| bpComposionWigCompairson.py | 2009-07-27 08:49 | 5.1K | |
| calculateGenomeGCcontent.py | 2015-01-15 20:37 | 1.1K | |
| calculatemmRNAGCcontent.py | 2009-12-03 10:37 | 2.4K | |
| capFields.py | 2016-11-05 10:51 | 1.3K | |
| changeCoordinatesAndCenter.py | 2012-10-29 16:46 | 1.6K | |
| chrM/ | 2017-04-17 22:44 | - | |
| chrSizeEndFilter.py | 2025-08-26 21:54 | 1.6K | |
| chromSizesToBed.py | 2018-11-19 21:41 | 1.4K | |
| circos_templates/ | 2013-05-07 03:09 | - | |
| collapseFasta.py | 2012-06-11 10:15 | 1.0K | |
| columnRename.py | 2019-05-10 09:41 | 2.1K | |
| columnsPick.py | 2025-04-16 17:57 | 1.3K | |
| columnsSort.py | 2017-08-30 20:30 | 2.3K | |
| combine2Files.py | 2011-02-11 17:21 | 3.9K | |
| combine2WigFiles.py | 2011-10-06 20:42 | 3.0K | |
| combineClusteredPeaksWithOriginalData.py | 2015-02-27 04:19 | 2.2K | |
| combineIntoTable.py | 2019-07-19 16:14 | 6.0K | |
| combineMultipleEntries.py | 2016-01-21 06:27 | 1.8K | |
| combineUnalignedReadsWithBAM.py | 2012-11-09 08:57 | 4.0K | |
| commoncode.py | 2010-06-25 23:39 | 69K | |
| commoncode.pyc | 2023-01-24 13:43 | 50K | |
| commoncode.tar.gz | 2018-08-30 22:44 | 465K | |
| commoncode/ | 2014-05-09 11:47 | - | |
| commoncode3.2+.tar.gz | 2018-08-30 22:44 | 148K | |
| commoncode3.2+/ | 2014-09-10 06:04 | - | |
| comparetwolists.py | 2019-12-06 21:01 | 3.0K | |
| condor-templates/ | 2016-12-31 22:28 | - | |
| conservation/ | 2017-09-29 19:29 | - | |
| contig_fasta2gtf.py | 2010-12-23 13:42 | 1.3K | |
| convertToInt.py | 2017-07-20 06:37 | 2.6K | |
| coordinatesPick.py | 2017-06-01 16:39 | 2.3K | |
| countBAMUniqueReadIDs.py | 2012-03-22 06:03 | 1.5K | |
| countE-boxes.py | 2013-03-07 02:03 | 16K | |
| coveragefromwig-cumulativeBT.py | 2010-04-06 09:47 | 7.7K | |
| coveragefromwig-cumulativeUTR.py | 2010-04-06 10:23 | 9.7K | |
| cumulativeGeneProfiles.py | 2018-02-10 22:03 | 6.2K | |
| demultiplexFASTQDualIndex.py | 2022-05-26 03:12 | 7.3K | |
| demultiplexFASTQEnd2Barcodes.py | 2018-08-14 18:09 | 2.3K | |
| demultiplexFASTQInternalBarcodes.py | 2018-08-14 18:48 | 2.5K | |
| densityFromBed.py | 2012-11-20 01:07 | 2.2K | |
| duplicatedReadsInRegions.py | 2010-12-25 01:10 | 3.5K | |
| eXpress/ | 2024-03-25 22:58 | - | |
| eland_results_to_fasta_input.py | 2010-01-09 23:31 | 953 | |
| elementOverlapTable.py | 2017-02-28 00:44 | 2.9K | |
| elementSaturation.py | 2011-12-19 00:56 | 5.7K | |
| empiricalCDF.py | 2018-02-04 11:47 | 2.0K | |
| erange-4.0a-BAM-2014-05-09-fix/ | 2014-09-23 00:54 | - | |
| erange-4.0a-BAM/ | 2014-09-15 01:35 | - | |
| erange-4.0a/ | 2014-03-04 18:40 | - | |
| erange2bed.py | 2014-07-08 09:00 | 1.2K | |
| estimateBaseCallDistriubion.py | 2009-07-20 10:00 | 2.2K | |
| extendbedreads.py | 2009-07-09 22:03 | 2.1K | |
| extractDataFromAListOfGenes.py | 2025-08-02 04:51 | 3.8K | |
| extractLinesByValue.py | 2019-03-27 12:35 | 4.1K | |
| extractLinesByValueMinMaxRow.py | 2023-10-26 22:28 | 4.3K | |
| fastReadLengthDist.py | 2013-10-17 02:51 | 2.1K | |
| fastaACGT.py | 2019-08-23 16:50 | 2.0K | |
| fastaBedGC.py | 2017-11-22 04:05 | 1.9K | |
| fastaBlocks.py | 2019-02-05 00:00 | 3.1K | |
| fastaChunks.py | 2023-09-12 04:20 | 2.0K | |
| fastaDinucleotideFrequencies.py | 2017-09-10 09:43 | 1.7K | |
| fastaFromDataFile.py | 2024-07-16 02:03 | 2.6K | |
| fastaFromSequenceCount.py | 2013-03-26 23:27 | 2.2K | |
| fastaGC.py | 2017-12-15 10:49 | 1.7K | |
| fastaGCskew.py | 2015-06-11 16:26 | 13K | |
| fastaGCskewMultipleChromosomesCombine.py | 2015-03-11 14:34 | 5.0K | |
| fastaGenesGroup.py | 2016-03-16 03:54 | 2.1K | |
| fastaMaxLength.py | 2024-12-15 17:02 | 1.6K | |
| fastaMinLength.py | 2014-03-22 05:58 | 1.5K | |
| fastaRevComp.py | 2020-11-17 04:08 | 1.5K | |
| fastaSet.py | 2016-02-17 15:47 | 1.4K | |
| fastaSplitOnePerFile.py | 2023-09-12 04:26 | 1.4K | |
| fastaSubset.py | 2024-05-10 01:00 | 2.2K | |
| fastaSubsetMultipleFiles.py | 2019-12-02 07:14 | 1.9K | |
| fastaToFastq.py | 2025-07-26 00:26 | 1.3K | |
| fastqBarcodeHistogram.py | 2024-10-28 12:07 | 3.0K | |
| fastqCas1.8IDconversion.py | 2011-08-16 15:16 | 1.5K | |
| fastqFilterOutInconsistentScores.py | 2019-06-09 18:43 | 1.5K | |
| fastqFromDataFile.py | 2025-03-01 09:49 | 2.4K | |
| fastqFromSingleLine.py | 2014-11-12 16:20 | 1.3K | |
| fastqIndexReadsMerge.py | 2023-08-14 15:59 | 2.7K | |
| fastqReadLength.py | 2011-07-10 12:00 | 944 | |
| fastqRevComp.py | 2020-09-11 13:29 | 1.6K | |
| fastqSeqCounts.py | 2018-10-20 10:25 | 2.2K | |
| fastqSequenceFilter.py | 2021-08-09 00:33 | 3.1K | |
| fastqSubset.py | 2019-06-20 08:29 | 2.2K | |
| fastqToSingleLine.py | 2014-11-12 16:20 | 1.6K | |
| fastqtofasta.py | 2025-03-04 15:59 | 2.0K | |
| filePseudoReps.py | 2019-08-11 11:12 | 1.2K | |
| filterBAMFields.py | 2013-01-29 11:56 | 2.0K | |
| filterBAMMulti.py | 2017-09-20 20:13 | 3.3K | |
| filterBAMfragmentLength.py | 2017-08-07 11:51 | 823 | |
| filterBAMsplices.py | 2017-08-07 20:08 | 662 | |
| filterGene-RegionsMatrix.py | 2009-07-24 09:22 | 2.7K | |
| filterRepeatMasker.py | 2012-12-19 17:45 | 3.3K | |
| filterTSSMatrix.py | 2009-11-17 13:08 | 2.0K | |
| filterbed.py | 2010-03-20 02:08 | 813 | |
| filterbowtie.py | 2010-03-17 01:22 | 1.2K | |
| filterbowtieSAM.py | 2012-02-27 18:15 | 1.8K | |
| firstNlines.py | 2011-10-06 10:08 | 869 | |
| fixFastq.py | 2011-11-28 13:53 | 1.0K | |
| fixbowtie.py | 2010-11-25 08:36 | 1.1K | |
| footprint-scores-minMax.py | 2025-05-28 05:19 | 1.9K | |
| footprint-scores.py | 2025-05-28 05:10 | 1.6K | |
| fractionElements.py | 2011-10-26 13:35 | 1.4K | |
| funcAssocGOgenes.py | 2013-02-06 12:52 | 2.0K | |
| functional_assays/ | 2011-09-15 18:10 | - | |
| genebed.py | 2010-05-14 09:02 | 1.6K | |
| generateBAMheader.py | 2012-05-03 23:06 | 1.4K | |
| getBAMalignmentsFromCoordinates.py | 2012-04-13 16:42 | 1.0K | |
| getFastaFromFasta.py | 2022-05-03 13:46 | 6.7K | |
| getFastaPysam.py | 2019-05-29 09:09 | 5.1K | |
| getFastafromBED.py | 2010-08-10 01:49 | 3.0K | |
| getQuartiles.py | 2011-03-25 12:06 | 3.4K | |
| getSAMalignmentFromCoordinates.py | 2011-09-21 12:53 | 1.9K | |
| getSpliceJunctionFasta.py | 2010-03-19 08:35 | 3.5K | |
| getTSSregions.py | 2009-10-02 19:42 | 2.9K | |
| getUniqueSAMAlignments.py | 2011-02-02 15:27 | 836 | |
| getfastaGeorgi.py | 2012-05-07 23:14 | 3.8K | |
| getfastaPYGR.py | 2012-01-14 23:52 | 3.1K | |
| gff-to-genes.py | 2019-08-27 19:26 | 2.3K | |
| gfftobed.py | 2010-12-23 13:04 | 872 | |
| gtf-gene-colinearity-vs-DE.py | 2018-11-19 15:24 | 6.3K | |
| gtf-gene-colinearity.py | 2019-03-31 14:29 | 2.6K | |
| gtf-to-RPKM-from-wig.py | 2010-06-12 15:13 | 3.4K | |
| gtf-to-genes.py | 2026-01-14 18:31 | 3.2K | |
| gtf-to-proteinIDs.py | 2014-05-19 22:44 | 1.6K | |
| gtfGenesTranscripts.py | 2014-03-11 23:06 | 1.7K | |
| gtftobed.py | 2018-08-14 12:29 | 4.3K | |
| hypergeometricArrayTesting.py | 2017-06-01 20:19 | 2.8K | |
| junk/ | 2014-12-06 20:03 | - | |
| logTransform.py | 2017-08-24 21:37 | 3.2K | |
| make3primeWigglefromBAM-NH.py | 2019-06-09 21:24 | 18K | |
| make5pMappabilityTracks.py | 2012-10-08 23:42 | 4.0K | |
| make5primeWigglefromBAM-NH.py | 2019-07-16 04:15 | 18K | |
| make5primeWigglefromBAM-unsortedalignments.py | 2019-09-11 08:00 | 6.7K | |
| makeBedFromRds_static | 2010-09-13 21:06 | 35K | |
| makeBedfromBAM-NH.py | 2020-07-28 20:28 | 7.4K | |
| makeBg4FromRds_static | 2010-09-13 21:06 | 35K | |
| makeChromSizesFromFasta.py | 2018-11-19 21:06 | 1.2K | |
| makeContigsFromBAM.py | 2011-08-29 11:58 | 5.8K | |
| makeEboxtrack.py | 2009-08-15 09:24 | 5.9K | |
| makeGCwiggleFromFasta.py | 2024-08-09 13:51 | 2.1K | |
| makeGenomeChunksBed.py | 2021-02-16 01:18 | 1.6K | |
| makeIntronicBed.py | 2009-08-10 08:05 | 1.2K | |
| makeTSSbed.py | 2009-12-16 19:36 | 3.3K | |
| makeTagAlignFromBAM.py | 2013-09-05 21:38 | 4.5K | |
| makeWiggleFromTagAlign.py | 2011-03-25 10:44 | 4.3K | |
| makebedfrombowtie.py | 2010-05-06 19:16 | 1.8K | |
| makedensitygenesegmentation-BAM.py | 2012-06-04 14:37 | 8.2K | |
| makedensitygenesegmentation.py | 2009-06-17 03:51 | 12K | |
| makeexonicbedfromcistematic.py | 2009-06-14 12:18 | 2.5K | |
| makehistogram.py | 2024-01-12 12:46 | 8.7K | |
| makehitsfromrds.py | 2010-02-08 05:45 | 2.1K | |
| makeposfromrds.py | 2009-09-14 20:21 | 2.4K | |
| makequeryfromqseq-AliM.py | 2009-07-20 04:56 | 566 | |
| makewigglefromBAM-NH.py | 2022-06-08 20:12 | 26K | |
| makewigglefromBAM.py | 2012-05-21 18:46 | 10K | |
| makewigglefromSAM.py | 2011-12-21 11:48 | 13K | |
| makewigglefrombed.py | 2017-08-26 00:31 | 4.1K | |
| makewigglefrombowtie.py | 2012-05-13 10:39 | 3.9K | |
| mappability-fraction-bed.py | 2016-10-25 23:38 | 2.6K | |
| mappability-fraction-of-genome.py | 2017-11-13 21:50 | 1.0K | |
| mappability-make_reads.py | 2016-03-11 18:52 | 4.0K | |
| mappability-mappable-regions-bed.py | 2018-01-29 05:29 | 1.7K | |
| mappability-splitReadsFastaByChr.py | 2019-05-02 09:26 | 1.3K | |
| mappability-unmappable-regions-bed.py | 2018-01-29 05:45 | 2.4K | |
| maskFasta.py | 2017-03-13 02:07 | 2.2K | |
| max_number.py | 2011-02-23 12:14 | 2.0K | |
| mergeregions.py | 2014-02-03 22:15 | 1.9K | |
| minMaxColumn.py | 2023-01-24 13:59 | 1.2K | |
| motifsPerRegionMatrix.py | 2019-09-30 13:42 | 4.4K | |
| multiple-fields-histogram.py | 2019-01-05 12:56 | 4.7K | |
| multipleEntriesCombineTwoFiles.py | 2015-03-25 14:52 | 3.5K | |
| multipleGenomesFasta.py | 2012-03-26 19:56 | 1.1K | |
| multipleGenomesGTF.py | 2012-03-26 19:59 | 1.0K | |
| nanopore-RNA/ | 2025-03-01 09:40 | - | |
| narrowPeakNarrow.py | 2018-11-29 07:48 | 860 | |
| ncbi/ | 2015-01-15 18:47 | - | |
| normalizeX.py | 2012-01-16 13:20 | 2.7K | |
| nucleosome-phasing/ | 2010-09-23 18:21 | - | |
| old+trash/ | 2018-04-07 18:14 | - | |
| overlappingPEreads2.py | 2011-04-11 23:30 | 2.6K | |
| papers_code/ | 2017-11-28 19:41 | - | |
| partitionGenome.py | 2024-04-17 05:53 | 1.4K | |
| partitionGenomeTSS-Exon-Intron-Intergenic.py | 2012-12-30 06:03 | 5.4K | |
| plotDomains-config-create.py | 2023-11-08 02:20 | 2.9K | |
| plotDomains.py | 2015-10-15 08:41 | 4.3K | |
| plotDomains2.py | 2017-08-24 10:31 | 5.8K | |
| plotonchromosomes.py | 2009-05-07 06:58 | 9.7K | |
| plotting/ | 2024-05-24 04:44 | - | |
| poolIDFastq-BAMdemultiplex.py | 2017-03-31 20:29 | 1.1K | |
| poolIDFastq.py | 2017-03-31 19:22 | 2.8K | |
| poolRPM.py | 2012-11-02 19:01 | 2.4K | |
| qseq2fastq-diane.py | 2010-01-07 20:58 | 3.1K | |
| quantileNorm.py | 2018-01-03 10:39 | 4.3K | |
| randomPEreads.py | 2011-04-11 18:50 | 1.7K | |
| randomRegions.py | 2012-11-04 06:29 | 1.9K | |
| readClusters.py | 2011-04-27 12:19 | 2.4K | |
| readMultiplicityBAM.py | 2012-09-14 11:37 | 1.4K | |
| refFlat-geneClearance.py | 2011-03-08 00:33 | 2.4K | |
| regionConservedFasta.py | 2009-07-20 04:13 | 4.0K | |
| regionToERANGEhts.py | 2012-06-02 19:41 | 3.5K | |
| regionsIntersectAnnotate.py | 2017-06-01 17:27 | 4.1K | |
| regiontoobedmodified.py | 2011-05-18 23:05 | 2.8K | |
| removeChrFromBed.py | 2011-07-12 17:05 | 1.1K | |
| removeSAMheader.py | 2012-04-25 06:22 | 791 | |
| removeUnalignedReadsFromSAM.py | 2012-04-28 03:00 | 1.1K | |
| renameFastq.py | 2014-12-03 23:14 | 1.3K | |
| renormalizeRPM.py | 2012-10-29 01:18 | 2.7K | |
| reorderLines.py | 2018-12-06 13:13 | 1.8K | |
| repeatBases.py | 2012-09-09 21:21 | 1.6K | |
| repeatCounts.py | 2011-07-11 16:13 | 1.5K | |
| repeatMaskerReformat.py | 2024-03-05 03:59 | 2.4K | |
| repeats_fraction_of_genome.py | 2019-07-10 00:13 | 1.8K | |
| rescaleValues.py | 2025-07-07 11:24 | 2.6K | |
| sampleBAM.py | 2017-12-13 21:20 | 2.9K | |
| sampleFastqN.py | 2017-06-22 07:16 | 1.9K | |
| sampleFile.py | 2019-12-26 18:48 | 1.4K | |
| sampleSAM.py | 2013-02-03 13:19 | 2.4K | |
| shiftBowtieReads.py | 2011-09-22 23:28 | 1.1K | |
| shuffleSeqRNAfoldToWig.py | 2012-06-12 01:20 | 5.4K | |
| shufflefasta.py | 2011-05-25 08:58 | 923 | |
| shufflefastqReads.py | 2014-08-12 07:29 | 1.5K | |
| signFlip.py | 2013-12-30 23:47 | 1.1K | |
| signalAroundCoordinate-BW.py | 2023-12-12 18:10 | 4.7K | |
| signalAroundCoordinate-individual-BW.py | 2024-10-16 05:55 | 6.1K | |
| signalAroundCoordinate-individual-stranded.py | 2017-06-29 12:45 | 8.6K | |
| signalAroundCoordinate-individual.py | 2017-08-22 10:57 | 7.3K | |
| signalAroundCoordinate.py | 2020-01-06 20:47 | 6.5K | |
| signalAroundCoordinateSenseAntiSense.py | 2017-06-29 11:40 | 8.4K | |
| single-cell-RNA-seq/ | 2025-03-10 23:04 | - | |
| small_RNA/ | 2025-07-26 00:12 | - | |
| sortLaTeXreferences.py | 2021-04-03 03:42 | 1.8K | |
| sortfile.py | 2011-07-11 15:46 | 1.6K | |
| splitBAMbyLength.py | 2018-01-02 18:56 | 4.6K | |
| splitFileByChr.py | 2024-04-17 05:54 | 1.5K | |
| splitFileByValue.py | 2025-04-17 08:36 | 1.7K | |
| splitFileIntoQuantiles.py | 2025-04-17 08:48 | 1.4K | |
| splitFolderWithManyFiles.py | 2022-10-18 11:45 | 1.8K | |
| splitSingleFieldCoordinates.py | 2011-10-18 20:30 | 1.2K | |
| splitfastaintosmallerfiles.py | 2023-09-12 04:22 | 1.4K | |
| splitfastqintolanes.py | 2011-07-06 22:49 | 1.3K | |
| splitfile.py | 2025-05-25 13:36 | 2.1K | |
| splitfileintwo.py | 2025-06-23 20:33 | 1.4K | |
| splitpairedendfile.py | 2010-02-24 22:27 | 1.4K | |
| spp/ | 2015-10-11 03:40 | - | |
| sumEveryNRows.py | 2023-02-02 15:10 | 2.8K | |
| sumfields.py | 2026-02-19 02:21 | 2.2K | |
| telomereCoordinates.py | 2017-03-01 21:55 | 1.0K | |
| topFeatureFraction.py | 2021-08-14 00:06 | 1.9K | |
| track-hub-setup.py | 2023-11-27 14:16 | 1.3K | |
| transcriptome/ | 2025-08-28 19:43 | - | |
| transposefile.py | 2011-07-12 18:01 | 1.1K | |
| trimaAltoSuperMatrixRename.py | 2016-12-31 22:17 | 688 | |
| trimandpoolfastq.py | 2011-07-10 10:59 | 5.6K | |
| trimfasta.py | 2014-09-23 00:01 | 1.4K | |
| trimfastq.py | 2021-08-09 05:16 | 9.2K | |
| trimpolyA.py | 2009-11-28 12:53 | 2.3K | |
| uniqueElementsTable.py | 2011-11-22 15:00 | 2.7K | |
| variableStepToWig.py | 2011-03-26 17:05 | 1.2K | |
| variation/ | 2017-07-06 21:54 | - | |
| wholeGeneRPKM.py | 2010-04-11 20:31 | 4.6K | |
| wigPlusMinusRatio.py | 2023-08-03 09:32 | 3.7K | |
| wigToBlock.py | 2015-10-28 06:52 | 2.5K | |
| wigToSingleBPwig.py | 2016-08-07 13:49 | 953 | |
| wigs-to-table.py | 2012-05-31 19:36 | 3.2K | |
| wigtoRPKM.py | 2009-07-06 10:45 | 3.7K | |
| wigtoRPKMfrombed.py | 2010-09-01 10:06 | 2.8K | |