Tools installed
| Section | Tool |
|---|---|
| Metagenomic Analysis | mash f8e51626fc56 |
Tools updated
| Section | Tool |
|---|---|
| Annotation | annotatemyids 44018dd6b447 snpsift 2e497a770bca |
| Assembly | flye de24438c9988 shovill 83ead2be47b2 |
| Blast + | ncbi_blast_plus 5edc472ec434 |
| ChiP-seq | diffbind 163688bb8f73 sicer 5c2cc3b58c7d |
| EMBOSS | emboss_5 ce385837c160 |
| FASTA/FASTQ | fasta_merge_files_and_filter_unique_sequences f546e7278f04 |
| FASTQ Quality Control | multiqc f7985e0479b9 |
| Get Data | dbbuilder e9df53a75f3c |
| Graph/Display Data | circos df7356989ac1 ggplot2_heatmap a4d83ba2a1bc ggplot2_point a36551483a8f pygenometracks 2824d77cd8f8 |
| HiCExplorer | hicexplorer_hicbuildmatrix 921a2da49a0c hicexplorer_hicfindtads 78fb5e286609 hicexplorer_hicmergematrixbins 9e357a8b2ec3 hicexplorer_hicpca 0ba4f56a3613 hicexplorer_hicplotmatrix 5308ca68ef3d |
| Metagenomic Analysis | metadegalaxy_uc2otutable 08ca35e99b74 metadegalaxy_reheader dce768959840 kraken2 4a9da2b6c2e3 kraken_filter 3d6570bffdb1 |
| Mothur | mothur_chop_seqs 35fd955898e0, bfb14e1053a1 mothur_make_contigs 829bb93d3add, 00dd059b77e5 mothur_summary_single 88d39b1679df, 782564664543 mothur_align_check b2bc37b60346 mothur_align_seqs 72276610cdfa mothur_amova 389ac95dc2f5 mothur_anosim 87c5f82dac4c mothur_bin_seqs 49a970c244c2 mothur_biom_info 223e748e0268 mothur_chimera_bellerophon b732e27030e8 mothur_chimera_ccode 983b440a26b2 mothur_chimera_check c4572980d8f9 mothur_chimera_perseus 17df89a5847b mothur_chimera_pintail d06d799b19ae mothur_chimera_slayer 0fde524609b1 mothur_chimera_uchime 89ae96c8d333 mothur_chimera_vsearch 12e856482d26 mothur_classify_otu 86b2201a1f4b mothur_classify_seqs 8ca80de3f4ef mothur_classify_tree 17081663ab68 mothur_clearcut a735e855f28f mothur_cluster 1b695ad32179 mothur_cluster_classic 97ac7726c985 mothur_cluster_fragments f49de3951b73 mothur_cluster_split a54f91ad1c84 mothur_collect_shared d7de4aa1fdd1 mothur_collect_single acfb60d5d435 mothur_consensus_seqs e14fb5184328 mothur_cooccurrence 512d7ce50a57 mothur_corr_axes 9db54b02c49d mothur_count_groups a0fc4eb349af mothur_count_seqs 014583f8e83b mothur_create_database 3cd1ccb4d58b mothur_degap_seqs 1cbf0af70205 mothur_deunique_seqs 276c9f17a9a2 mothur_deunique_tree 1ace9d6863aa mothur_dist_seqs 10f5ecfab7bb mothur_dist_shared 6290d3234345 mothur_fastq_info 25f02dced96c mothur_filter_seqs 89b9efa3c1f0 mothur_filter_shared 382b60f3756e mothur_get_communitytype 79dc573692a4 mothur_get_coremicrobiome 618612060af3 mothur_get_dists d1fba6b01a90 mothur_get_group f220bbab51e1 mothur_get_groups dd84e5f5eeaa mothur_get_label 07d9a6a72e6d mothur_get_lineage 65853cd9ac99 mothur_get_mimarkspackage 9983b77b0532 mothur_get_otulabels 6b173f5aa3ca mothur_get_otulist ef6e35325002 mothur_get_oturep 1e1a6eaae624 mothur_get_otus 71d3e589c0b1 mothur_get_rabund 7792e8e95112 mothur_get_relabund 6b3130958acc mothur_get_sabund 132ec4ee9d17 mothur_get_seqs fc4b74b7f345 mothur_get_sharedseqs 414307889d75 mothur_heatmap_bin 921a072b8552 mothur_heatmap_sim 24328bd746b5 mothur_homova ca2b0847c8a2 mothur_indicator a224c578d941 mothur_lefse 008cb5a481f2 mothur_libshuff 1fe5098be27a mothur_list_otulabels c2d81e2bf502 mothur_list_seqs 3612e382d294 mothur_make_biom ecd90b4198a2 mothur_make_design 4228d1b7aa01 mothur_make_fastq e6a7eaf1923d mothur_make_group 7ea39cdd3c5d mothur_make_lefse b009f1b8e922 mothur_make_lookup d20ab289b0c0 mothur_make_shared 5eaf2d7253f6 mothur_make_sra abb205c9b967 mothur_mantel ea41c6924945 mothur_merge_count 9696e3b3a098 mothur_merge_files f5dba396fe63 mothur_merge_groups 23d11599dfaf mothur_merge_sfffiles 4484fe89e1a5 mothur_merge_taxsummary 41f056a2ca71 mothur_metastats 6adb9311e99d mothur_mimarks_attributes bfbd98549bc4 mothur_nmds f36dc56e8a2b mothur_normalize_shared a89fbfe8386f mothur_otu_association 0037bed5bf77 mothur_otu_hierarchy 98abd0047263 mothur_pairwise_seqs bc53948e3666 mothur_parse_list 94d78559a361 mothur_parsimony 70d555c67aec mothur_pca ee26037477a1 mothur_pcoa 539f247ff952 mothur_pcr_seqs 482d26a40589 mothur_phylo_diversity 20b1d5bb66d0 mothur_phylotype 12e24ffced04 mothur_pre_cluster 872dbea91d49 mothur_primer_design aa4dcd3099fe mothur_rarefaction_shared 76149f899b5c mothur_rarefaction_single ebb853546cac mothur_remove_dists ad18e40e8569 mothur_remove_groups b0748ba87fba mothur_remove_lineage 5a41ab037c7c mothur_remove_otulabels 1f6046c0efdd mothur_remove_otus 6bdb704814f4 mothur_remove_rare 7b6e00f6c21f mothur_remove_seqs 9480bbc368c0 mothur_rename_seqs ac151f3a8f94 mothur_reverse_seqs be74be7f5d90 mothur_screen_seqs c1feef4d5e34 mothur_sens_spec 27171cf0b8ba mothur_seq_error cd31c11bcc25 mothur_sffinfo 8b42e4ec39df mothur_shhh_flows fcb3fa45b93e mothur_shhh_seqs e7327eaaab37 mothur_sort_seqs 56bf9112c46b mothur_split_abund 246519916e6a mothur_split_groups 53cbf80d4a65 mothur_sub_sample 893d9058d563 mothur_summary_qual 656ffc277a38 mothur_summary_seqs 4af62516059b mothur_summary_shared 8c18ced5e8c3 mothur_summary_tax c85146fe9890 mothur_taxonomy_to_krona 696ed5c6d1f0 mothur_tree_shared ae1468c3e1fa mothur_trim_flows 1f336ed182b8 mothur_trim_seqs 38eea52b9ef7 mothur_unifrac_unweighted 42ae7755f3c1 mothur_unifrac_weighted 09f802a2c3fa mothur_unique_seqs 71788e5ced45 mothur_venn 139bdc1c3b48 |
| Phylogenetics | hyphy_absrel 6a457678efcb hyphy_gard 6223845127ea |
| Proteomics | cardinal_classification 2308bd817e3e, 3f8fe8747f22 cardinal_combine 7cd9208028bf, e9b92a4b8b1c cardinal_mz_images a95a82eb4d50, a2b57ea6666e cardinal_data_exporter 137bfc63e758 cardinal_filtering 2aefa66e48e5 cardinal_preprocessing e0669b1854b1 cardinal_quality_report ecaebe7c7b54 cardinal_segmentations 0159b15b1281 cardinal_spectra_plots 10566783d718 |
| RNA-seq | deseq2 de44f8eff84a hisat2 d4b55e2beb12 transdecoder c6334cb383ff featurecounts ea04b737afa0 |
| SAM/BAM | samtools_view bf328cec6a42 |
| Single-cell | dropletutils 8855361fcfc5 |
| Statistics | sklearn_numeric_clustering ad7e0b4291ee |
| Text Manipulation | text_processing ddf54b12c295 |
| Variant Calling | lofreq_call e1461b5c52a0 |
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