Seq: A high-performance, Pythonic language for bioinformatics
Seq is a programming language for computational genomics and bioinformatics. With...on-compatible syntax and a host of domain-specific features and optimizations, Seq makes writing high-performanc...1623 days ago
BioJupies: Automatically Generates RNA-seq Data Analysis Notebooks
...zed, reusable, and interactive report from your own raw or processed RNA-seq data through a simple user in...right corner of the page for access to unlimited private notebooks, RNA-seq datasets and alignment jobs....1230 days ago
StringTie Transcript assembly and quantification for RNA-Seq
...is a fast and highly efficient assembler of RNA-Seq alignments into potential tra...cript assemblers, but also alignments of longer sequences that have been assemble...llgown, Cuffdiff or other programs (DESeq2, edgeR, etc.).1424 days ago
Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads
...the only other method (SEECER) designed for RNA-seq reads, and is more time and m...orrector.pl [OPTIONS] OPTIONS: Required -s seq_files: comma separated files...the first mate in the paried-end data sets -2 seq_files_right: comma separated...1549 days ago
1504 days ago
Genobuntu: Package for Next Generation Sequencing and Genome Assembly
...AIPAN Edena SOAPdenovo Maq IDBA-UD No. of Reads present in the Ref. Seq. ART NGS Reads Simulator HiTEC, FASTQC Minimum Description Length SOAPaligner Sequencing Read Archive Toolkit...1445 days ago
RNA-Bloom: a fast and memory-efficient de novo transcript sequence assembler
...is a fast and memory-efficient de novo transcript sequence assembler. It is designed for the following sequencing data types: single-...-seq (strand-specific/agnostic) paired-end single-cell RNA-seq (strand-specific/agnostic) n...1394 days ago
SEASTAR: Systematic Evaluation of Alternative STArt site in RNA
...rt site in RNA) is a software package for Transcription Start Site (TSS) identification and quantification using only RNA-seq data. It assembles novel TSSs based only on RNA-Seq data and merges them with kno...1359 days ago
proActiv: Estimation of Promoter Activity from RNA-Seq data
proActiv is an R package that estimates promoter activity from RNA-Seq data. proActiv uses aligned reads and genome annotations as input, and provides absolute and relative promoter...1359 days ago
DnaSP: DNA Sequence Polymorphism, is a software package for the analysis of DNA polymorphisms
DnaSP, DNA Sequence Polymorphism, is a software pack...data from a single locus (a multiple sequence aligned -MSA data), or f...rmats generated by some assembler RAD-seq software). DnaSP can estimate...odon positions), as well as linkage disequilibrium, recombination, gene...1254 days ago