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wwood
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CoverM
Read coverage calculator for metagenomics
GNU General Public License v3.0
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clarity on min-covered-fraction
#178
itsmisterbrown
closed
1 year ago
2
Best measurement for conducting differential abundance analysis
#177
Somebodyatthdoor
closed
1 year ago
8
How to cite CoverM
#176
SarahIsme
closed
10 months ago
2
thread 'main' panicked at 'index out of bounds: the len is 6564 but the index is 6586'
#175
haleyhallowell
closed
1 year ago
4
Unable to find BAM file when file exists
#174
iwilkie
closed
1 year ago
2
default rep seq picking method
#173
itsmisterbrown
closed
1 year ago
2
Usage of --sharded
#172
Rridley7
opened
1 year ago
0
Q: coverM compatible with bowtie2
#171
aistBMRG
closed
1 year ago
1
libtinfow.so.6: no version information available (required by samtools)
#170
bhimbbiswa
closed
1 year ago
2
[2023-06-04T07:45:16Z INFO coverm::contig] In sample 'cdhit_rep_seq.fna/SRR13083091_1.fq.gz', found 0 reads mapped out of 0 total (NaN%)
#169
JiaLonghao1997
opened
1 year ago
3
How can I provide extra parameters to BWA using the "--bwa-params" option?
#168
ilnamkang
closed
1 year ago
3
CoverM to assess genomes relative proportion in Metatranscriptomics data?
#167
JSSaini
opened
1 year ago
1
Extracting bam files
#166
ntromas
closed
1 year ago
1
CoverM reports near 0 reads mapped despite almost all reads seemingly being mapped
#165
greenmna
closed
1 year ago
5
Feature request: Handle secondary alignments and new release
#164
jakobnissen
closed
1 year ago
5
--contig-end-exclusion doesn't work with -m not set to mean
#163
alexcritschristoph
opened
1 year ago
2
Zero covered bases and mean coverage but non-zero reads mapping
#162
bck243
opened
1 year ago
0
Calculations of min-read-percent-identity and min-read-aligned-length
#161
Rridley7
opened
1 year ago
2
Question about TPM
#160
DeaconOfBiology
opened
1 year ago
4
Coverm filter inverse paired reads
#159
Rridley7
closed
1 year ago
4
Checkm2 tsv for `coverm cluster --checkm-tab-table`
#158
KnudNorNielsen
closed
1 year ago
1
A question on RPKM calculation
#157
ilnamkang
closed
1 year ago
2
Read minimum length & small RNA mapping
#156
vibsd
opened
1 year ago
3
replacing FastANI with skani for faster computations for the cluster command
#155
jianshu93
opened
1 year ago
0
are reverse reads considered on this alignment?
#154
Valentin-Bio
opened
1 year ago
1
Tag a release?
#153
schorlton
opened
1 year ago
1
Include secondary in filter mode
#152
natalia-rodilla
opened
1 year ago
1
build(deps): update bio requirement from 0.41.0 to 1.1.0
#150
dependabot[bot]
closed
1 year ago
1
Too many open files error!
#149
LuckyFeiX
opened
1 year ago
1
[ERROR coverm::bam_generator] The STDERR for the minimap2 part
#148
WoCer2019
opened
1 year ago
8
Question on min-covered-fraction and total read counts
#146
mherold1
opened
1 year ago
1
Allow gzipped fasta files to be provided as input
#145
rhysnewell
opened
1 year ago
1
The relative abundance of each MAG in each sample
#144
B-1991-ing
opened
1 year ago
10
build(deps): update nix requirement from 0.24.* to 0.26.*
#143
dependabot[bot]
closed
1 year ago
2
build(deps): update env_logger requirement from 0.9.* to 0.10.*
#142
dependabot[bot]
closed
1 year ago
1
issue with installing conda
#141
kayanac
closed
2 years ago
8
how to change the temporary directory
#140
lonestarling
closed
2 years ago
3
build(deps): update rust-htslib requirement from 0.39.* to 0.40.*
#139
dependabot[bot]
closed
1 year ago
2
how to calculate relative abundance of genomes in different samples
#138
linlin0026
opened
2 years ago
2
How to get many(all) methods in once calculate？
#137
xanadu314
closed
2 years ago
2
build(deps): update bio requirement from 0.41.0 to 1.0.0
#136
dependabot[bot]
closed
1 year ago
1
build(deps): update clap_complete requirement from 3.* to 4.*
#135
dependabot[bot]
closed
1 year ago
2
build(deps): update clap requirement from 3.* to 4.*
#134
dependabot[bot]
closed
1 year ago
2
FPKM
#133
Biofarmer
opened
2 years ago
2
NaN in the relative abundance output file
#132
B-1991-ing
closed
2 years ago
3
build(deps): update bio requirement from 0.41.0 to 0.42.0
#131
dependabot[bot]
closed
2 years ago
1
build(deps): update nix requirement from 0.24.* to 0.25.*
#130
dependabot[bot]
closed
1 year ago
1
Request: Strip binary and/or LTO
#129
jakobnissen
closed
2 years ago
1
[Feature request] Set read group in BAM file?
#128
akiledal
closed
2 years ago
3
Failed to correctly find or parse BAM file at "/tmp/coverm_fifo.tDWtDjcZrfy4/foo.pipe"
#127
Hollyhlp
opened
2 years ago
1
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