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api
api
 
 
genbank-fan
genbank-fan
 
 
parsers
parsers
 
 
16s_seq_process.sh
16s_seq_process.sh
 
 
LICENSE
LICENSE
 
 
MiSeq_rdptool_map_parser.py
MiSeq_rdptool_map_parser.py
 
 
Pull_seq_from_uniprot.py
Pull_seq_from_uniprot.py
 
 
README.md
README.md
 
 
add_file_name_to_reads.py
add_file_name_to_reads.py
 
 
bin_reads.py
bin_reads.py
 
 
blast_parser.py
blast_parser.py
 
 
blast_parser_b_multi.py
blast_parser_b_multi.py
 
 
blast_parser_grep_high_evalues.py
blast_parser_grep_high_evalues.py
 
 
cdhit_clst_parser.py
cdhit_clst_parser.py
 
 
cdhit_parser_copy.py
cdhit_parser_copy.py
 
 
check_chimera_numbers.py
check_chimera_numbers.py
 
 
check_derep_seq_abundance.py
check_derep_seq_abundance.py
 
 
clst_abundance.py
clst_abundance.py
 
 
combine_clstr_blast_wrap.sh
combine_clstr_blast_wrap.sh
 
 
combine_desc_clstr.py
combine_desc_clstr.py
 
 
combine_nwk_id_w_organisms.py
combine_nwk_id_w_organisms.py
 
 
combine_taxa.py
combine_taxa.py
 
 
count_clst_abundance.py
count_clst_abundance.py
 
 
fastq_to_fasta.py
fastq_to_fasta.py
 
 
fix_index_fastqgz_names.py
fix_index_fastqgz_names.py
 
 
grep_seq_header_add_index.py
grep_seq_header_add_index.py
 
 
grep_seq_header_add_sample_name.py
grep_seq_header_add_sample_name.py
 
 
hmmalign_wrap.sh
hmmalign_wrap.sh
 
 
id_tax_split.py
id_tax_split.py
 
 
insert_desc_blast+.py
insert_desc_blast+.py
 
 
mac2unix.pl
mac2unix.pl
 
 
make_wrapper.sh
make_wrapper.sh
 
 
rdp_assem_stat_parser.py
rdp_assem_stat_parser.py
 
 
revcomp_rdp_format.py
revcomp_rdp_format.py
 
 
seq_stats_fastq_gz.py
seq_stats_fastq_gz.py
 
 
subset_I_for_pandaseq.py
subset_I_for_pandaseq.py
 
 
uniprot_dat.py
uniprot_dat.py
 
 
uniprot_euk_fungi.py
uniprot_euk_fungi.py
 
 
uniprot_id_all.py
uniprot_id_all.py
 
 
uniprot_id_microbes.py
uniprot_id_microbes.py
 
 
uniprot_id_prok.py
uniprot_id_prok.py
 
 
uniprot_ref_taxa.py
uniprot_ref_taxa.py
 
 
usearch_denovo_chim_remover.py
usearch_denovo_chim_remover.py
 
 
usearch_map_uc_parser.py
usearch_map_uc_parser.py
 
 
xander_start_quality_check.py
xander_start_quality_check.py
 
 

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code

This directory contains some useful scripts (solely python at the moment) for some basic file parsing.

    1. blast table output
    1. addition of blast descriptions
    1. uniprot .dat parser
    1. cdhit clstr parser
    1. bash automation scripts

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useful scripts

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