Sequence conversionProvided by Bioinf @ Bugaco

ace Reads the contig sequences from an ACE assembly file. Uses Bio.Sequencing.Ace internally clustal The alignment format of Clustal X and Clustal W. See also the Bio.Clustalw module. embl The EMBL flat file format. Uses Bio.GenBank internally. fasta This refers to the input FASTA file format introduced for Bill Pearson's FASTA tool, where each record starts with a '>' line. Resulting sequences have a generic alphabet by default. fastq FASTQ files are a bit like FASTA files but also include sequencing qualities. In Biopython, 'fastq' refers to Sanger style FASTQ files which encode PHRED qualities using an ASCII offset of 33. See also the incompatible 'fastq-solexa' and 'fastq-illumina' variants. fastq-solexa FASTQ files are a bit like FASTA files but also include sequencing qualities. In Biopython, 'fastq' refers to Sanger style FASTQ files which encode PHRED qualities using an ASCII offset of 33. See also the incompatible 'fastq-solexa' and 'fastq-illumina' variants. fastq-illumina FASTQ files are a bit like FASTA files but also include sequencing qualities. In Biopython, 'fastq' refers to Sanger style FASTQ files which encode PHRED qualities using an ASCII offset of 33. See also the incompatible 'fastq-solexa' and 'fastq-illumina' variants. genbank The GenBank or GenPept flat file format. ig This refers to the IntelliGenetics file format, apparently the same as the MASE alignment format. nexus The NEXUS multiple alignment format, also known as PAUP format. phd PHD files are output from PHRED, used by PHRAP and CONSED for input. phylip An alignment format. Truncates names at 10 characters. pir A 'FASTA like' format introduced by the National Biomedical Research Foundation (NBRF) for the Protein Information Resource (PIR) database, now part of UniProt. stockholm The Stockholm alignment format is also known as PFAM format. swiss Swiss-Prot aka UniProt format. tab Simple two column tab separated sequence files, where each line holds a record's identifier and sequence. For example, this is used by Aligent's eArray software when saving microarray probes in a minimal tab delimited text file. qual Qual files are a bit like FASTA files but instead of the sequence, record space separated integer sequencing values as PHRED quality scores. A matched pair of FASTA and QUAL files are often used as an alternative to a single FASTQ file.

Conversion map:

ace to clustal ace to fasta ace to fastq ace to fastq-solexa ace to fastq-illumina ace to genbank ace to nexus ace to phylip ace to stockholm ace to tab ace to qual clustal to fasta clustal to fastq clustal to fastq-solexa clustal to fastq-illumina clustal to genbank clustal to nexus clustal to phylip clustal to stockholm clustal to tab clustal to qual embl to clustal embl to fasta embl to fastq embl to fastq-solexa embl to fastq-illumina embl to genbank embl to nexus embl to phylip embl to stockholm embl to tab embl to qual fasta to clustal fasta to fastq fasta to fastq-solexa fasta to fastq-illumina fasta to genbank fasta to nexus fasta to phylip fasta to stockholm fasta to tab fasta to qual fastq to clustal fastq to fasta fastq to fastq-solexa fastq to fastq-illumina fastq to genbank fastq to nexus fastq to phylip fastq to stockholm fastq to tab fastq to qual fastq-solexa to clustal fastq-solexa to fasta fastq-solexa to fastq fastq-solexa to fastq-illumina fastq-solexa to genbank fastq-solexa to nexus fastq-solexa to phylip fastq-solexa to stockholm fastq-solexa to tab fastq-solexa to qual fastq-illumina to clustal fastq-illumina to fasta fastq-illumina to fastq fastq-illumina to fastq-solexa fastq-illumina to genbank fastq-illumina to nexus fastq-illumina to phylip fastq-illumina to stockholm fastq-illumina to tab fastq-illumina to qual genbank to clustal genbank to fasta genbank to fastq genbank to fastq-solexa genbank to fastq-illumina genbank to nexus genbank to phylip genbank to stockholm genbank to tab genbank to qual ig to clustal ig to fasta ig to fastq ig to fastq-solexa ig to fastq-illumina ig to genbank ig to nexus ig to phylip ig to stockholm ig to tab ig to qual nexus to clustal nexus to fasta nexus to fastq nexus to fastq-solexa nexus to fastq-illumina nexus to genbank nexus to phylip nexus to stockholm nexus to tab nexus to qual phd to clustal phd to fasta phd to fastq phd to fastq-solexa phd to fastq-illumina phd to genbank phd to nexus phd to phylip phd to stockholm phd to tab phd to qual phylip to clustal phylip to fasta phylip to fastq phylip to fastq-solexa phylip to fastq-illumina phylip to genbank phylip to nexus phylip to stockholm phylip to tab phylip to qual pir to clustal pir to fasta pir to fastq pir to fastq-solexa pir to fastq-illumina pir to genbank pir to nexus pir to phylip pir to stockholm pir to tab pir to qual stockholm to clustal stockholm to fasta stockholm to fastq stockholm to fastq-solexa stockholm to fastq-illumina stockholm to genbank stockholm to nexus stockholm to phylip stockholm to tab stockholm to qual swiss to clustal swiss to fasta swiss to fastq swiss to fastq-solexa swiss to fastq-illumina swiss to genbank swiss to nexus swiss to phylip swiss to stockholm swiss to tab swiss to qual tab to clustal tab to fasta tab to fastq tab to fastq-solexa tab to fastq-illumina tab to genbank tab to nexus tab to phylip tab to stockholm tab to qual qual to clustal qual to fasta qual to fastq qual to fastq-solexa qual to fastq-illumina qual to genbank qual to nexus qual to phylip qual to stockholm qual to tab

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