Project

Top
Top page of project.
Settings
Configuration of project.
Register members
Control members who could access to data.

Sample

Register files
Submit fastq files (*.fastq.gz) for analysis.
Register samples
Group files into samples.
Register groups
Group samples.
系列登録
登録したサンプルまたはグループを系列にします。
Quality of sample
Display the number of reads derived from the in-line control.

Assemble

Settings
Settings for the assembling of reads.
Result
Summary of the assemble.
Detail of contig
Display the sequence of contig.
Search contigs
Search contigs by using BLAST.
Detect SNPs
Display SNPs observed in contigs.

Annotation

Settings
Configure annotation options.
Result
Summary of Annotation.

Mapping

Settings
Settings for the mapping the reads to the assembled reference.
Summary of Mapping
Show the number of reads, rate for mapping by each sample.
Expression level
Show tag count for each contigs.
Display the mapped image (pile image)
Draw pile image for the reads mapped to contig.

Two samples analysis

比較解析
サンプル間で発現量の比を計算し、遺伝子を絞り込みます。
Scatter plot
Draw scatter plot.
DESeq
R パッケージのDESeqを用いてサンプル間で発現量に変化があるものを抽出します。

Multi samples analysis

Cluster analysis
Make a cluster of samples based on the expression pattern of contigs.

Reference

Nucleotide sequences
Search transcript sequence.
Protein
Search amino acid sequence.
Genome
Show genome sequence.
Blast search
Search sequences registered in PoTHoS by BLAST.
キーワード検索
配列IDまたはアノテーション中の文字列を検索します。
Download
Download nucleotide and amino acid sequences stored in PoTHoS as FASTA format.

Authentication

Login
Please login to show the data under access control.
Registration
Register e-mail address.

Project settings


The project name would be used for the URL (/pothos/project_name/) and the prefix of the contig name (project_name000001.000).Only alphabet is allowed. The short words expressing the organism (exp: Arabidopsis thaliana -> Ath) was recomended.

Please input the scientific name or nickname for the subject of your research project. You can input alphabet, number and symbols (.-_#).

Please input your name (Ex: John Smith).

The mail would be sent to this address at the end of calculation.

Select appearance of project.

You can limit the users who could browse this project.

You can limit the users who could configure the analysis settings.