GitHub - EmilyAmor/PhD_scripts: Collection of personal scripts written to solve simple bioinformatic problems

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Collection of personal scripts written to solve simple bioinformatic problems

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Name		Name	Last commit message	Last commit date
Latest commit History 44 Commits
.ipynb_checkpoints		.ipynb_checkpoints
TransDecoder_cds_output_stats_prep.txt		TransDecoder_cds_output_stats_prep.txt
anova_biochem.py		anova_biochem.py
brite_parse.py		brite_parse.py
clean_fasta_headers.py		clean_fasta_headers.py
common_domains.py		common_domains.py
correlation_test.py		correlation_test.py
count_base.py		count_base.py
count_contigs.py		count_contigs.py
edit_read_names_fastq.py		edit_read_names_fastq.py
extact_corresponding_OG_transcripts.py		extact_corresponding_OG_transcripts.py
extract_og_contigs_orthofinder.py		extract_og_contigs_orthofinder.py
extract_rows_in_table_according_to_value.py		extract_rows_in_table_according_to_value.py
extract_sequences.py		extract_sequences.py
fastasplit.py		fastasplit.py
kraken_classification.py		kraken_classification.py
maximum_gc_from_fasta.py		maximum_gc_from_fasta.py
merge_tables.py		merge_tables.py
orthofinder_extract_all_protein_sequences.py		orthofinder_extract_all_protein_sequences.py
orthofinder_extract_transcripts.py		orthofinder_extract_transcripts.py
orthofinder_make_dataframe_OGs_and_sequences.py		orthofinder_make_dataframe_OGs_and_sequences.py
parse_brite_extract_contigs.py		parse_brite_extract_contigs.py
parse_diamond_taxonomy_count.py		parse_diamond_taxonomy_count.py
parse_kraken_count.py		parse_kraken_count.py
pfam_deduplicate.py		pfam_deduplicate.py
pfamdomain_count.py		pfamdomain_count.py
post_hoc_tukey.py		post_hoc_tukey.py
reads_mapped_to_busco_contigs.py		reads_mapped_to_busco_contigs.py
remove_contigs_smaller_than_300bp.py		remove_contigs_smaller_than_300bp.py
rev_compl_biopyth.py		rev_compl_biopyth.py
reverse_compl.py		reverse_compl.py
split_fasta_contig_sizes.py		split_fasta_contig_sizes.py
stats_ORFs_per_contig.py		stats_ORFs_per_contig.py
transcriptome_size.py		transcriptome_size.py
ttest.py		ttest.py
txt_table_2_csv.py		txt_table_2_csv.py
useful_bioinformatic_bash_scripts.txt		useful_bioinformatic_bash_scripts.txt
word_count.py		word_count.py