SpliceSEQ SpliceSeq. SpliceViewer is really a Java software that enables researchers to investigate alternative mRNA splicing styles in info from high-throughput mRNA sequencing studies. Sequence reads are mapped to splice graphs that unambiguously quantify the inclusion level of each exon and splice junction.
Biopieces Biopieces can be a collection of bioinformatics equipment that is often pieced collectively inside of a very simple and versatile fashion to complete both equally uncomplicated and sophisticated responsibilities. The Biopieces work on an information stream in this type of way that the data stream could be passed by way of many different Biopieces, each accomplishing a single certain endeavor: modifying or introducing records to the information stream, developing plots, or uploading facts to databases and Net services.
FusionMap FusionMap. FusionMap is undoubtedly an efficient fusion aligner which aligns reads spanning fusion junctions directly to the genome without prior familiarity with probable fusion regions.
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condetri condetri is a technique for written content dependent read trimming for Illumina facts working with quality scores of each base separately. It truly is independent from sequencing coverage and user conversation.
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NSMAP NSMAP makes it possible for inference of isoforms at the same time estimation of expression ranges, without annotated information. The exons are aligned and splice junctions are determined using TopHat. All of the attainable isoforms are computed by blend of the detected exons.
LeafCutter LeaffCutter, a suite of novel approaches that permit identi cation and quantication of novel and current alternative splicing activities by concentrating on intron excisions.
SoapSplice SoapSplice - A tool for genome-extensive ab initio detection of splice junction web pages from RNA-Seq, a method applying new generation sequencing systems to sequence the messenger RNA.
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Issues converting a file to FASTA Howdy! How are you presently? I am using a hard time changing a file. I have FASTA formatted sequences...
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Biowardrobe Biowardrobe an integrated System for Evaluation of epigenomics and transcriptomics details.
ZOOM (commercial) ZOOM is a brief aligner with the Illumina/Solexa 1G System. ZOOM uses extended spaced seeds methodology setting up hash tables for that reads, and tolerates mismatches and insertions and deletions.