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Released:

trim adapters from high-throughput sequencing reads

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Project description

Cutadapt

Cutadapt finds and removes adapter sequences, primers, poly-A tails and othertypes of unwanted sequence from your high-throughput sequencing reads.

Cleaning your data in this way is often required: Reads from small-RNAsequencing contain the 3’ sequencing adapter because the read is longer thanthe molecule that is sequenced. Amplicon reads start with a primer sequence.Poly-A tails are useful for pulling out RNA from your sample, but often youdon’t want them to be in your reads.

Cutadapt helps with these trimming tasks by finding the adapter or primersequences in an error-tolerant way. It can also modify and filter single-endand paired-end reads in various ways. Adapter sequences can contain IUPACwildcard characters. Cutadapt can also demultiplex your reads.

Cutadapt is available under the terms of the MIT license.

Cutadapt development was started at TU Dortmund Universityin the group of Prof. Dr. Sven Rahmann.It is currently being developed withinNBIS (National Bioinformatics Infrastructure Sweden).

If you use Cutadapt, please citeDOI:10.14806/ej.17.1.200 .

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Q:

How can I cut a recipe in half?

A:

The simplest method -- reducing all ingredients by half -- works for most recipes, particularly ones that don't require much precision or chemistry, like soups, stews, casseroles, and simple sauces.

Example: If the recipe calls for one cup of a liquid or dry ingredient, reduce the amount to a half cup. (Be sure you're using liquid and dry measuring cups for the appropriate ingredients.)

ORIGINAL (HALF)
1 cup (1/2 cup)
3/4 cup (1/4 cup + 2 Tbl.)
2/3 cup (1/3 cup)
1/2 cup (1/4 cup)
1/3 cup (2 Tbl. + 2 tsp.)
1/4 cup (2 Tbl.)
3 Tbl. (1 Tbl. + 1 1/2 tsp.)
2 Tbl. (1 Tbl.)
1 Tbl. (1 1/2 tsp.)

When you're baking or preparing any dish that requires more precision to cook properly, you might have to convert the recipe based on the weight of the ingredients. Measuring by weight is more accurate than measuring by volume. For example, one cup of flour weighs approximately 4.25 ounces. To cut the recipe in half, you should weigh out 2.12 ounces of flour.

Want to cut by more than half? If you know the end weight or quantity of a recipe you want to cut, you can also scale the ingredients using a simple conversion calculation.

Example: The recipe makes eight cups of spaghetti sauce, but you only want to make three cups.

• Step 1: Divide the new amount by the old (for example, 3 ÷ 8=.375)
• Step 2: Multiply all ingredients in the recipe by the conversion number (in this case, .375).

EGGS: If the cut recipe requires less than one large egg, beat the egg until the yolk and white are blended. Let the bubbles settle, then measure out two tablespoons.

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SALT, PEPPER & SPICES: Use a scant half of the original amount when measuring seasonings for a recipe you cut in half, then adjust seasonings to taste. (It's easier to add than to subtract.)

9 Cut 1.2.1 Games

TEMPERATURE: Use the original temperature recommended in the recipe.

9 Cut 1.2.1 Download

TIME: Cooking time will not be exactly half the time listed in the recipe. It is usually more than half. Example: If the original recipe says to bake for one hour, the actual cooking time for the smaller recipe might be around 40 to 45 minutes.