资源导航

161. RSAT peak-motifs: A workflow combining a series of time- and memory-efficient motif analysis tools to extract motifs from full-size collections of peaks as generated by ChIP-seq, ChIP-chip or other ChIP-X technologies.; 标签：ChIP-Seq, Regulatory genomics,Epigenomics
162. ICORN: Iteratively aligns deep coverage of short sequencing reads to correct errors in reference genome sequences and evaluate their accuracy.; 标签：
163. RNA-MATE: A recursive mapping strategy for high-throughput RNA-sequencing data.; 标签：RNA-Seq Alignment, RNA-Seq Quantitation
164. SeqBuster: SeqBuster, a web-based bioinformatic tool offering a custom analysis of deep sequencing data at different levels, with special emphasis on the analysis of miRNA variants or isomiRs and the discovering of new small RNAs.; 标签：Small RNA transcriptome, MiRNA
165. TagDust: TagDust, a program identifying artifactual sequences in large sequencing runs. Given a user-defined cutoff for the false discovery rate (FDR), TagDust identifies all reads explainable by combinations and partial matches to known sequences used during library preparation.; 标签：
166. Cistrome: Galaxy-based web service for analysis of ChIP data; 标签：ChIP-on-chip, ChIP-Seq
167. BayesCall: Bayesian basecaller; 标签：Sequencing
168. Swift: Primary Data Analysis for the Illumina Solexa Sequencing Platform.; 标签：
169. GenomeMapper: GenomeMapper is a short read mapping tool designed for accurate read alignments. It quickly aligns millions of reads either with ungapped or gapped alignments. It can be used to align against multiple genomes simulanteously or against a single reference.; 标签：
170. SeqMINER: seqMINER is an integrated portable ChIP-seq data interpretation platform with optimized performances for efficient handling of multiple genomewide datasets. seqMINER allows comparison and integration of multiple ChIP-seq datasets and extraction of qualitative as well as quantitative inf...; 标签：ChIP-Seq
171. GPSeq: Analyze RNA-seq data to estimate gene and exon expression, identify differentially expressed genes, and differentially spliced exons; 标签：RNA-Seq Quantitation
172. SHE-RA: The SHE-RA software turns error-prone short reads into Sanger-quality composite reads.; 标签：
173. MICSA: Combines positional information with information on motif occurrences to better predict binding sites of transcription factors (TFs); 标签：ChIP-Seq
174. Rnnotator: Automated software pipeline that generates transcript models by de novo assembly of RNA-Seq data without the need for a reference genome; 标签：De novo transcriptome assembly
175. MirTools: Web server for microRNA profiling and discovery based on high-throughput sequencing; 标签：Small RNA transcriptome, MiRNA
176. NOISeq: Next Generation Sequencing (NGS) technologies are increasingly being used for gene expression pro�filing as a replacement for microarrays. The expression level given by these technologies is the number of reads in the library mapping to a given feature (gene, exon, transcript, etc.), i....; 标签：Differential Expression
177. Kismeth: Web-based tool for bisulfite sequencing analysis; 标签：DNA methylation, Epigenomics
178. NovelSeq: A computational framework to discover the content and location of long novel sequence insertions using paired-end sequencing data; 标签：Structural variation, InDel discovery
179. Tallymer: A collection of flexible and memory-efficient programs for k-mer counting and indexing of large sequence sets.; 标签：
180. Mzip: Reference-based sequence data compression tool; 标签：

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