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Sequence Analysis Tools for Molecular Biologists

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Assembler Screencasts

The following videos show aspects of sequence assembly using Assembler (Note: if you experience jerky playback, click pause and wait until the video downloads fully before playback).

Reference Alignment with Bowtie

MacVector 10.5 allows you to align cDNA clones against a corresponding genomic sequence and automatically identify the introns and exons. Actual splice sites at ambiguous junctions are determined using the standard GT..AG intron rule. Once identified you can quickly save each intron or exon as a feature on the parental sequence.

Overview

Creating a Sequencing Project

Base Calling Using phred

Vector Trimming with cross_match

Assembling Sequences using phrap

Editing and Analysis of Contigs

NGS Reference Assembly using Bowtie

NGS de novo Assembly using Velvet

Comparing Assembler and AssemblyLIgn

SplitFastqFile - a ultility to break up large fastq files.

Functional comparison with Sequencher