Proch::N50 - a small module to calculate N50 (total size, and total number of sequences) for a FASTA or FASTQ file. It's easy to install, with minimal dependencies.

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PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

Proch::Seqfu - Helper module to support Seqfu tools

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PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

n50 - A script to calculate N50 from one or multiple FASTA/FASTQ files.

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This program parses a list of FASTA/FASTQ files calculating for each one the number of sequences, the sum of sequences lengths and the N50, N75, N90 and auN <https://lh3.github.io/2020/04/08/a-new-metric-on-assembly-contiguity>. It will print the res...

PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

fu-say - Testing module

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PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

fu-cat - Concatenate FASTA or FASTQ files

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This program parses a list of FASTA/FASTQ and will concatenate them ensuring consistent output. Will rename duplicate sequence names. Will try to autodetect the format of all files before executing and decide accordingly the output format (FASTA if a...

PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

fu-len - A demo implementation to filter fastx files by length

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PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

fu-hash - Print sequence hashes

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PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

fu-uniq - Dereplicate sequences

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PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

fu-sort - Sort sequences by size

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PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

fu-grep - Extract sequences using patterns

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PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

fu-count - A FASTA/FASTQ sequence counter

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This program parses a list of FASTA/FASTQ files printing the number of sequences found in each file. Reads both uncompressed and GZipped files. Default output is the filename, tab, sequence count. Can be changed with options. The table "key" is the a...

PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

fu-rename - rename sequences

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PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

fu-extract - Get sequences by name (also using lists)

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PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC

fu-compare - Find the common sequences between two files

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PROCH/Proch-N50-1.5.8 - 20 Jul 2023 16:06:47 UTC