All Episodes
Micro binfie podcast — 156 episodes
153 - Seebot
152 - Deacon part 2
151 - Deacon part 1
150 - Genomicx
149 - Bridging AI & Biosciences
148 - NextFlow debate 3
147 - NextFlow debate 2
146 - NextFlow debate 1
145 - micro binfie Pathoplexus part 2
144 - micro binfie Pathoplexus part 1
143 - where we catch up on our professional lives
142 - Microbinfie - genomeqc
140 Exploring Clinical Metagenomics
139 Lassa virus genomics
138 Decoding Tetracycline Resistance in MRSA
137 Contagion part 2
135 Assembling ATCC bacterial strains
141 hackathon panel
136 Contagion part 1
134 Diving into MRSA, Genomics, and Public Health
133 The Role of Bioinformatics in Public Health and Disease Outbreaks
132 Unlocking the Secrets of Antimicrobial Resistance in Metagenomes
131 Bioinformatics Evolution: Torsten Seemann on Snippy, Open-Source Support, and Global Genomics
130 Exploring Genomic Innovation and Machine Learning in Public Health
129 Genomics on the Frontier: Bactopia, Bioinformatics, and Pathogen Surveillance with Robert Petit
128 Haiti cholera outbreak with Christine Lee and Cynney Walters
127 Minimum spanning trees
126 Tree viz
125 Kostas Konstantinidis returns to talk to us about ANI and metagenomics
124 Kostas Konstantinidis talks to us about ANI and metagenomics
123 The Revolution of Hash Databases in cgMLST
122 GAMBIT: Genomic Approximation Method for Bacterial Identification and Tracking
121 K-mers, Sourmash, and Open Source Software - More Conversations with Titus Brown
120 Scaling Metagenomic Search with Sourmash - Conversations with Titus Brown
119 The Challenges of Microbial Taxonomy - Conversations with Titus Brown
118 Real bioinformaticians react to Jurassic Park
117 From Math to Metagenomics - Titus Brown on Career Journeys and Software Solutions
116 AI Authorship and Ethics in Academic Publishing for Genomics
115 Write-the: speeding up software development for bioinformatics
114 Write-the: Automating Code Documentation ChatGPT
113 Global Microbial Identifier conference with Ruth Timme
112 Global Microbial Identifier conference with Will Hsiao
111 Global Microbial Identifier with Finlay Maguire and Emma Griffiths
110 ChatGPT: The Bioinformatics Calculator
109 AI Unleashed: Navigating the Opportunities and Challenges of AI in Microbial Bioinformatics
Encore: What language should I learn?
108 SeqCode: a nomenclatural code for prokaryotes described from sequence data
107 Systematics and naming of prokaryotes in the era of sequencing
106 Why on earth would you do a PostDoc?
105 Mobile genetic elements panel discussion
104 The Kraken software suite
103 Release the Kraken
102 Early days of MLST
101 One Health with Natacha Couto and Ed Feil
100 The 100th episode
99 Stories from the frontlines of bioinformatics
98 Nomadic bioinformatics with Frank
97 Advances in sequencing technologies
96 IMMEM XIII and ASM NGS conference roundup
95 Lost in Translation with Torsten Seemann
94 The great scientific Mastodon migration
93 Roary Troubleshooting And Issues
92 Avoid dependency hell and get up and running fast
91 What language should I learn?
90 Public health bioinformatics on the cloud with WDL + Terra.bio
89 What do we do with WDL?
88 Sepia directors cut
87 Nextstrain, SARSCOV2 and dealing with a data deluge
86 What's next for nextstrain?
85 Breaking the dogma with bioinformatics
84 Bioinformatics in the noughties with Mark Pallen
83 A short journey into mobile genetic elements
82 Bioinformatics moments before the millennium
81 The people behind the benchmark datasets for SARS-CoV-2
80 Benchmark datasets for SARS-CoV-2
79 StaPH-B: Stable containers for public health bioinformatics
78 StaPH-B: state public health bioinformatics
77 Genomics for a new era
76 What are the major challenges for getting AMR genomics into the clinic?
74 SEPIA With Henk - Soup Or Salad Yes!
73 Bactopia and using workflow managers in bioinformatics part 2
72 Bactopia and using workflow managers in bioinformatics part 1
71 Bacterial taxonomy: Into the unknown, SeqCode, naming uncultured multitudes and renaming of phyla
70 Bacterial Taxonomy: the grand vista is ahead of us
69 Background to bacterial taxonomy
68 Bacterial Taxonomy: what is a species, what is a strain? part 2
67 Bacterial Taxonomy: what is a species, what is a strain?
66 Scholarly Communications for Bioinformaticians
75 How to review a bioinformatics paper in 10 days or less
65 Genomics of Mycobacterium tuberculosis
64 Mycobacterium tuberculosis: the forgotten pandemic
63 A dive into Campylobacter genomics
62 Campylobacter: the fussy little pathogen
61 Non FUNGIble tokens: you too can own BRCA1
Encore: 06 - What software not to write
60 Whats in a name: Salmonella and E. Coli
59 - Microbe Moment Micro Binfie
58 - StaPH-B careers with Curtis Kapsak and Kevin Libuit
57 StaPH-B - Docker containers for Public Health bioinformatics Part 1
56 SARS-CoV-2 And Sequencing Spike With Sanger Sequencing part 2
55 SARS-CoV-2 And Sequencing Spike With Sanger Sequencing - Welcome To 1995
54 SARS-CoV-2 In Canada and addressing data sharing and privacy
53 SARS-CoV-2 surveillance in Canada with CANCOGEN
52 SARS-CoV-2 sequencing in Denmark with Mads Albertsen
51 SARSCOV2 Round-up 3 and updates from Denmark
50 Atypical invasive non-typhoidal Salmonella in The Gambia
49 SARS-CoV-2 Tools and resources update
48 SARS-CoV-2 More Variants of Concern and updates from Africa
47 SARS-CoV-2 Rapid roundup and questions answered
46 SARS-CoV-2 genomics resources
45 Software deep dive: Enterobase
44 How to sequence SARS-CoV-2 using the ARTIC protocol with Joshua Quick
43 Why use genomics in an epidemic? with Sam Sheppard
42 Overcoming barriers to SARS-CoV-2 data analysis
41 SARS-CoV-2 Phylogenomics questions answered
40 A crash course in SARS-CoV-2 bioinformatics
39 Explaining the naming of SARS-CoV-2 new variants
38 Ontologies - effective data sharing
37 Ontologies - the secret sauce of bioinformatics
36 Roary the pangenome pipeline
35 The Wandering Bioinformatician
34 Moving from wet to dry with Phil Ashton
33 The untrained monkey
32 Looking behind Majora's Mask and nation wide tracking of SARS-CoV-2 genomics
31 Large scale sequencing of SARS-CoV-2 genomes from one region
30 How we made the podcast on our 1st birthday
29 Mashtree software deep dive
28 BRIG the BLAST Ring Image Generator
27 SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments
26 SARS-CoV-2 contextual data specification for open genomic epidemiology
25 Sustainable bioinformatics software
24 Experimental projects lead to experimental software
23 CoronaHiT: large scale multiplexing of SARS-CoV-2 genomes on Nanopore
22 Assembly after party
21 Setting up coronavirus sequencing for real-time public health surveillance
20 Assembly read healing
19 Microbinfies assemble
18 Panel - Has Nanopore rendered onsite Illumina obsolete?
17 Bayesian magic in practice
16 The theory behind Bayesian Magic
15 Bioinformatics war stories
14 La resistance lives on: The AMR deep dive
13 Questions not to ask
12 Phylogenetics with the arborists part 2
11 Phylogenetics with the arborists part 1
10 History of file formats
09 Nobel prize or contamination
08 Looking back at 2019
07 Wham, BAM, thank you SAM.
06 Writing good bioinformatics software with Torsten Seemann
05 History of Genotyping - Decentralised Future
04 History of Genotyping - The early years
03 FASTQ - all your bases are belong to us
02 What bioinformatics software not to write part 2
01 What bioinformatics software not to write part 1
00 Trailer