GitHub - lizhao007/bioscripts: several scripts for bioinformatics

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several scripts for bioinformatics

Name		Name	Last commit message	Last commit date
Latest commit History 9 Commits
J.conf		J.conf
SeqStat.py		SeqStat.py
SimCollapse.py		SimCollapse.py
SimContigs.py		SimContigs.py
SimSID.py		SimSID.py
StatAgp.py		StatAgp.py
StatAgpDetail.py		StatAgpDetail.py
StatGFF3.py		StatGFF3.py
approximate_cnv.py		approximate_cnv.py
average_fpkm.py		average_fpkm.py
bam_plotter.py		bam_plotter.py
batch_HiC.pl		batch_HiC.pl
blast2heatmap.py		blast2heatmap.py
calc_gap_cnt.py		calc_gap_cnt.py
calc_gene_density.py		calc_gene_density.py
calc_gene_ovlp_te.py		calc_gene_ovlp_te.py
clean_snp_with_ABBA_result.py		clean_snp_with_ABBA_result.py
convert_QTL_info.py		convert_QTL_info.py
convert_collinearity_from_MCScanX_to_Circos.py		convert_collinearity_from_MCScanX_to_Circos.py
convert_gbff_to_fasta.py		convert_gbff_to_fasta.py
convert_simple_for_circos.py		convert_simple_for_circos.py
dup_dotplot.pl		dup_dotplot.pl
eval_filled_gaps.py		eval_filled_gaps.py
extract_all_sv_from_nucmer_delta.py		extract_all_sv_from_nucmer_delta.py
extract_gene_from_gff.py		extract_gene_from_gff.py
extract_gene_seq_with_dogma.py		extract_gene_seq_with_dogma.py
extract_vcf.py		extract_vcf.py
filter_bed_for_jcvi.py		filter_bed_for_jcvi.py
filter_cds.py		filter_cds.py
filter_fasta_by_blast_result.py		filter_fasta_by_blast_result.py
find_gff_ovlp_regions.py		find_gff_ovlp_regions.py
fragment_reads.py		fragment_reads.py
generate_ABBA_scripts.py		generate_ABBA_scripts.py
generate_bed_for_jcvi.py		generate_bed_for_jcvi.py
generate_ctg_fragments.py		generate_ctg_fragments.py
get_chr_centromere.py		get_chr_centromere.py
get_chr_len.py		get_chr_len.py
get_genes_from_range.py		get_genes_from_range.py
get_genes_region_from_gff.py		get_genes_region_from_gff.py
get_genes_with_bed.py		get_genes_with_bed.py
get_gff_with_list.py		get_gff_with_list.py
get_nohit_seq.py		get_nohit_seq.py
get_seq_from_range.py		get_seq_from_range.py
get_seq_with_bed.py		get_seq_with_bed.py
get_seq_with_list.py		get_seq_with_list.py
group_SNP_exon_and_intron.py		group_SNP_exon_and_intron.py
group_exon_and_intron.py		group_exon_and_intron.py
mergeFileSeqStat.py		mergeFileSeqStat.py
merge_bed_regions.py		merge_bed_regions.py
merge_karyotypes.py		merge_karyotypes.py
merge_two_lists.py		merge_two_lists.py
modify_geno_with_snp_mummer.py		modify_geno_with_snp_mummer.py
nucmer_extract_all_sv.py		nucmer_extract_all_sv.py
nucmer_statistics.py		nucmer_statistics.py
nucmer_statistics_all_sv.py		nucmer_statistics_all_sv.py
quick_extract_fastx.py		quick_extract_fastx.py
quick_mask_genome.py		quick_mask_genome.py
quick_merge_file.py		quick_merge_file.py
remove_region_by_blast_result.py		remove_region_by_blast_result.py
rename_geno_head.py		rename_geno_head.py
rename_id_for_jcvi.py		rename_id_for_jcvi.py
rename_species.py		rename_species.py
simple_ANGSD.py		simple_ANGSD.py
simple_ANGSD_without_errorCorrect.py		simple_ANGSD_without_errorCorrect.py
simple_JBrowser.py		simple_JBrowser.py
split_cds_by_chr.py		split_cds_by_chr.py
split_cmd_with_parts.py		split_cmd_with_parts.py
split_fasta_by_chr.py		split_fasta_by_chr.py
split_fasta_by_count.py		split_fasta_by_count.py
split_fasta_by_id.py		split_fasta_by_id.py
split_groups_with_ctg_chr_blast_for_AllHiC.py		split_groups_with_ctg_chr_blast_for_AllHiC.py
split_groups_with_ctg_ctg_blast_for_AllHiC.py		split_groups_with_ctg_ctg_blast_for_AllHiC.py
split_tbl_by_id.py		split_tbl_by_id.py
subVCF.py		subVCF.py
vcf2geno.py		vcf2geno.py

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