-
Notifications
You must be signed in to change notification settings - Fork 24
/
modules.json
252 lines (252 loc) · 11.5 KB
/
modules.json
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
{
"name": "nf-core/circrna",
"homePage": "https://github.com/nf-core/circrna",
"repos": {
"https://github.com/nf-core/modules.git": {
"modules": {
"nf-core": {
"bedtools/getfasta": {
"branch": "master",
"git_sha": "cdcdd5e3d806f0ff3983c40c69e0b07bb44ec299",
"installed_by": ["modules"]
},
"bedtools/groupby": {
"branch": "master",
"git_sha": "3b248b84694d1939ac4bb33df84bf6233a34d668",
"installed_by": ["modules"]
},
"bedtools/intersect": {
"branch": "master",
"git_sha": "575e1bc54b083fb15e7dd8b5fcc40bea60e8ce83",
"installed_by": ["modules"]
},
"bedtools/sort": {
"branch": "master",
"git_sha": "571a5feac4c9ce0a8df0bc15b94230e7f3e8db47",
"installed_by": ["modules"]
},
"bioawk": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"],
"patch": "modules/nf-core/bioawk/bioawk.diff"
},
"bowtie/align": {
"branch": "master",
"git_sha": "3c77ca9aac783e76c3614a06db3bfe4fef619bde",
"installed_by": ["modules"]
},
"bowtie/build": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"bowtie2/align": {
"branch": "master",
"git_sha": "e4bad511789f16d0df39ee306b2cd50418365048",
"installed_by": ["modules"]
},
"bowtie2/build": {
"branch": "master",
"git_sha": "1fea64f5132a813ec97c1c6d3a74e0aee7142b6d",
"installed_by": ["modules"]
},
"bwa/index": {
"branch": "master",
"git_sha": "e0ff65e1fb313677de09f5f477ae3da30ce19b7b",
"installed_by": ["modules"]
},
"cat/cat": {
"branch": "master",
"git_sha": "9437e6053dccf4aafa022bfd6e7e9de67e625af8",
"installed_by": ["modules"]
},
"cat/fastq": {
"branch": "master",
"git_sha": "4fc983ad0b30e6e32696fa7d980c76c7bfe1c03e",
"installed_by": ["modules"]
},
"circexplorer2/annotate": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"circexplorer2/parse": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"csvtk/join": {
"branch": "master",
"git_sha": "614abbf126f287a3068dc86997b2e1b6a93abe20",
"installed_by": ["modules"]
},
"csvtk/split": {
"branch": "master",
"git_sha": "614abbf126f287a3068dc86997b2e1b6a93abe20",
"installed_by": ["modules"]
},
"custom/dumpsoftwareversions": {
"branch": "master",
"git_sha": "de45447d060b8c8b98575bc637a4a575fd0638e1",
"installed_by": ["modules"]
},
"custom/gtffilter": {
"branch": "master",
"git_sha": "a0aee18374b7f072aa0f89f4d66f5a3a9f8176d2",
"installed_by": ["modules"]
},
"custom/tx2gene": {
"branch": "master",
"git_sha": "ec155021a9104441bf6a9bae3b55d1b5b0bfdb3a",
"installed_by": ["modules"]
},
"fastqc": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"gawk": {
"branch": "master",
"git_sha": "cf3ed075695639b0a0924eb0901146df1996dc08",
"installed_by": ["modules"]
},
"gffread": {
"branch": "master",
"git_sha": "6c996d7fbe0816dcbb68ce587ad5f873313682a1",
"installed_by": ["modules"]
},
"gnu/sort": {
"branch": "master",
"git_sha": "a3cc42943548378b726610f45bb5a79ab3f0b633",
"installed_by": ["modules"]
},
"hisat2/align": {
"branch": "master",
"git_sha": "400037f54de4b0c42712ec5a499d9fd9e66250d1",
"installed_by": ["modules"]
},
"hisat2/build": {
"branch": "master",
"git_sha": "400037f54de4b0c42712ec5a499d9fd9e66250d1",
"installed_by": ["modules"]
},
"hisat2/extractsplicesites": {
"branch": "master",
"git_sha": "400037f54de4b0c42712ec5a499d9fd9e66250d1",
"installed_by": ["modules"]
},
"miranda": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"multiqc": {
"branch": "master",
"git_sha": "cf17ca47590cc578dfb47db1c2a44ef86f89976d",
"installed_by": ["modules"]
},
"samtools/faidx": {
"branch": "master",
"git_sha": "04fbbc7c43cebc0b95d5b126f6d9fe4effa33519",
"installed_by": ["modules"]
},
"samtools/flagstat": {
"branch": "master",
"git_sha": "46eca555142d6e597729fcb682adcc791796f514",
"installed_by": ["bam_stats_samtools"]
},
"samtools/idxstats": {
"branch": "master",
"git_sha": "46eca555142d6e597729fcb682adcc791796f514",
"installed_by": ["bam_stats_samtools"]
},
"samtools/index": {
"branch": "master",
"git_sha": "46eca555142d6e597729fcb682adcc791796f514",
"installed_by": ["bam_sort_stats_samtools", "modules"]
},
"samtools/sort": {
"branch": "master",
"git_sha": "46eca555142d6e597729fcb682adcc791796f514",
"installed_by": ["bam_sort_stats_samtools", "modules"]
},
"samtools/stats": {
"branch": "master",
"git_sha": "46eca555142d6e597729fcb682adcc791796f514",
"installed_by": ["bam_stats_samtools"]
},
"samtools/view": {
"branch": "master",
"git_sha": "6c2309aaec566c0d44a6cf14d4b2d0c51afe2e91",
"installed_by": ["modules"]
},
"segemehl/align": {
"branch": "master",
"git_sha": "9a6b0745dbb5359286d36dee2183ffab240abba0",
"installed_by": ["modules"]
},
"segemehl/index": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"star/align": {
"branch": "master",
"git_sha": "a21faa6a3481af92a343a10926f59c189a2c16c9",
"installed_by": ["modules"]
},
"star/genomegenerate": {
"branch": "master",
"git_sha": "a21faa6a3481af92a343a10926f59c189a2c16c9",
"installed_by": ["modules"]
},
"stringtie/stringtie": {
"branch": "master",
"git_sha": "b1b959609bda44341120aed1766329909f54b8d0",
"installed_by": ["modules"]
},
"trimgalore": {
"branch": "master",
"git_sha": "a98418419ae6c9df3cf6cf108d1e1aba71037d5a",
"installed_by": ["modules"]
},
"tximeta/tximport": {
"branch": "master",
"git_sha": "5d095e8413da1f4c72b7d07ce87f75c09482486f",
"installed_by": ["modules"]
}
}
},
"subworkflows": {
"nf-core": {
"bam_sort_stats_samtools": {
"branch": "master",
"git_sha": "46eca555142d6e597729fcb682adcc791796f514",
"installed_by": ["subworkflows"]
},
"bam_stats_samtools": {
"branch": "master",
"git_sha": "0eacd714effe5aac1c1de26593873960b3346cab",
"installed_by": ["bam_sort_stats_samtools", "subworkflows"]
},
"utils_nextflow_pipeline": {
"branch": "master",
"git_sha": "3aa0aec1d52d492fe241919f0c6100ebf0074082",
"installed_by": ["subworkflows"]
},
"utils_nfcore_pipeline": {
"branch": "master",
"git_sha": "1b6b9a3338d011367137808b49b923515080e3ba",
"installed_by": ["subworkflows"]
},
"utils_nfschema_plugin": {
"branch": "master",
"git_sha": "bbd5a41f4535a8defafe6080e00ea74c45f4f96c",
"installed_by": ["subworkflows"]
}
}
}
}
}
}