文件名称：天鹰座：基于链接阅读的二倍体个人基因组组装和全面变异检测
文件大小：17.91MB
文件格式：ZIP
更新时间：2024-03-04 05:49:51
Python
:milky_way: 天鹰座 :eagle: 通过Bioconda安装（最新版本1.0.0）： conda install aquila （在安装之前，请确保已为Bioconda正确设置） Aquila_step1 --help Aquila_step2 --help Aquila_clean --help Aquila_step1_multilibs --help Aquila_assembly_based_variants_call --help Aquila_phasing_all_variants --help Aquila_step0_sortbam --help Aquila_step0_sortbam_multilibs --help # You can also check the below corresponding scripts for more details #Download the
【文件预览】：
Aquila-master
----Assembly_based_variants_call()
--------README.md(4KB)
----README.md(15KB)
----bin()
--------Run_phase_alg_multithreads2_GenRef.py(2KB)
--------Run_spades_final_MT_2_all_noec_deltemp.py(5KB)
--------Extract_INS_allregions.py(10KB)
--------Extract_qname_from_phased_molecule_cut_phase_blocks_v3.py(4KB)
--------Extract_SV_info_from_contigs_use_overlap_for_del_forcontiginfo.py(15KB)
--------Run_microcontigs_all.py(2KB)
--------Make_supercontig_based_on_HCbk_from_sam_v5.py(9KB)
--------Extract_SV_info_from_contigs_use_shift_for_ins2_forcontiginfo.py(15KB)
--------Merge_reads_for_PB_of_merged_libs_v2.py(2KB)
--------Aquila_Umap.ipynb(12KB)
--------Run_phase_alg_multithreads2.py(2KB)
--------Aquila_step1_multilibs.py(15KB)
--------Molecule_phase_alg2_withProbModel_v3_MT2_hybrid.py(33KB)
--------Aquila_step2.py(5KB)
--------Aquila_step0_sortbam.py(2KB)
--------Aquila_phasing_all_variants.py(25KB)
--------Run_h5_all_multithreads_GenRef.py(27KB)
--------Run_extract_reads_for_smallchunks_all_lessmem.py(4KB)
--------Aquila_step0_sortbam_multilibs.py(3KB)
--------Aquila_assembly_based_variants_call.py(12KB)
--------Assign_phase_block_v3.py(13KB)
--------Aquila_clean.py(3KB)
--------Run_h5_all_multithreads.py(25KB)
--------Molecule_phase_alg2_withProbModel_v3_MT2_GenRef.py(34KB)
--------Aquila_Contigs_WGS.py(1KB)
--------Run_extract_reads_for_smallchunks_all_lessmem_hybrid.py(5KB)
--------Extract_DEL_allregions.py(10KB)
--------Concatenate_contigs_all_v4_extend_for_HCbk.py(3KB)
--------Get_uniqnessmap_for_Aquila.py(2KB)
--------Cut_phaseblock_for_phased_h5_v4.0_highconf_v2.py(11KB)
--------Extract_SNV_info_from_contigs_forcontiginfo_forall.py(15KB)
--------Concatenate_contigs_from_microcontigs.py(3KB)
--------SPAdes-3.13.0-Linux.tar.gz(14.42MB)
--------Read_fastqs_from_sortedbam_v2.py(5KB)
--------Aquila_step1.py(7KB)
--------Generate_highconf_cut_profile_v2.py(7KB)
--------paftools()
--------Run_phase_alg_multithreads2_hybrid.py(2KB)
--------Assign_phase_block_v4.py(16KB)
--------Aquila_step1_GenRef.py(8KB)
--------Molecule_phase_alg2_withProbModel_v3_MT2.py(33KB)
--------k8-0.2.4()
--------Extract_qname_from_phased_molecule_cut_phase_blocks_v3_hybrid.py(4KB)
----LICENSE(1KB)
----ReadMe_Step1_GenRef.md(864B)
----install.sh(957B)
----src()
--------submit_step1.sbatch(1KB)
--------How_to_get_uniqmap_folder.md(3KB)
--------How_to_get_bam_and_vcf.md(780B)
--------multiple_nodes.sh(1KB)