Project Activity

See All Activity >

Follow Transcriptome Assembly

Transcriptome Assembly Web Site

Other Useful Business Software
Gen AI apps are built with MongoDB Atlas Icon
Gen AI apps are built with MongoDB Atlas

The database for AI-powered applications.

MongoDB Atlas is the developer-friendly database used to build, scale, and run gen AI and LLM-powered apps—without needing a separate vector database. Atlas offers built-in vector search, global availability across 115+ regions, and flexible document modeling. Start building AI apps faster, all in one place.
Start Free
Rate This Project
Login To Rate This Project

User Ratings

★★★★★
★★★★
★★★
★★
1
0
0
0
0
ease 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 5 / 5
features 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 5 / 5
design 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 5 / 5
support 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 5 / 5

User Reviews

  • 1. BinPacker is an efficient de novo trascriptome assembler for RNA-Seq data. It can assemble all transcripts from short reads (single or paired) without using a reference. The software expects as input RNA-Seq reads in fasta or fastq format, and ouput all assembled candidate transcripts in fasta format. Briefly, it works in two step: first, BinPacker partitions the sequence data into many individual splicing graphs, each capturing the full transcriptional complexity at a given gene or no more than a few genes. Then BinPacker uses variants of the traditional bins packing model to search for minimum edge-path-cover over the splicng graph that can be supported by our data and could explain all observed splicing events of each locus. This software is free to use, modify, redistribute without any restrictions, except including the license provided with the distribution. ............................................................................................. 2. TransComb is an efficient ab initio trascriptome assembler for RNA-Seq data. It can assemble all transcripts from short paired-end reads using a reference and analyze their abundances. The software expects as input alignment file by Tophat2 BAM format, and ouput all assembled candidate transcripts in gtf format. This software is free to use, modify, redistribute without any restrictions, except including the license provided with the distribution.
Read more reviews >

Additional Project Details

Registered

2014-11-25