Hi-C analysis using HicStuff

Submission form

Fill in the form below to submit a job with HiCstuff. Fields marked with a star (*) are mandatory.

• Fastq input
• Bam input

Paired-end Fastq files

Note: Both file names should have the same basename except for R1/R2 marking them as forward/reverse

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Paired-end Bam files

Note: Both file names should have the same basename except for R1/R2 marking them as forward/reverse

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Reference genome

Choose your reference genome

Please select the corresponding reference genome Deinococcus radiodurans Pseudomonas aeruginosa PAO1

or upload a reference genome

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Job name

Give your job a name (max 30 characters - please avoid any special characters)*

Restriction enzyme

Specify one or multiple enzymes, use the comma as a separator

Advanced options

Duplicates

Alignment tool

minimap2 bwa bowtie2

Centromere file

Upload your centrome position file

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Specify the number of kb that will be remove around the centromere position given by in the centromere file.

Circular

Minimum mapping quality

Reset fields (NB: according the the size of your input, submission might take a little while)

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